def train(args):
# Get model
model = models.__dict__[args.model](args)
if args.ckpt_path:
model = ModelSaver.load_model(model, args.ckpt_path, args.gpu_ids, is_training=True)
model = model.to(args.device)
model.train()
# Get loader, logger, and saver
train_loader, val_loader = get_data_loaders(args)
logger = TrainLogger(args, model, dataset_len=len(train_loader.dataset))
saver = ModelSaver(args.save_dir, args.max_ckpts, metric_name=args.metric_name,
maximize_metric=args.maximize_metric, keep_topk=True)
# Train
while not logger.is_finished_training():
logger.start_epoch()
for batch in train_loader:
logger.start_iter()
# Train over one batch
model.set_inputs(batch['src'], batch['tgt'])
model.train_iter()
logger.end_iter()
# Evaluate
if logger.global_step % args.iters_per_eval < args.batch_size:
criteria = {'MSE_src2tgt': mse, 'MSE_tgt2src': mse}
stats = evaluate(model, val_loader, criteria)
logger.log_scalars({'val_' + k: v for k, v in stats.items()})
saver.save(logger.global_step, model,
stats[args.metric_name], args.device)
logger.end_epoch()
def train(args):
if args.ckpt_path:
model, ckpt_info = ModelSaver.load_model(args.ckpt_path, args.gpu_ids)
args.start_epoch = ckpt_info['epoch'] + 1
else:
model_fn = models.__dict__[args.model]
model = model_fn(**vars(args))
model = nn.DataParallel(model, args.gpu_ids)
model = model.to(args.device)
model.train()
# Get optimizer and scheduler
optimizer = optim.get_optimizer(
filter(lambda p: p.requires_grad, model.parameters()), args)
lr_scheduler = optim.get_scheduler(optimizer, args)
if args.ckpt_path:
ModelSaver.load_optimizer(args.ckpt_path, optimizer, lr_scheduler)
# Get logger, evaluator, saver
loss_fn = nn.CrossEntropyLoss()
train_loader = CIFARLoader('train', args.batch_size, args.num_workers)
logger = TrainLogger(args, len(train_loader.dataset))
eval_loaders = [CIFARLoader('val', args.batch_size, args.num_workers)]
evaluator = ModelEvaluator(eval_loaders, logger, args.max_eval,
args.epochs_per_eval)
saver = ModelSaver(**vars(args))
# Train model
while not logger.is_finished_training():
logger.start_epoch()
for inputs, targets in train_loader:
logger.start_iter()
with torch.set_grad_enabled(True):
logits = model.forward(inputs.to(args.device))
loss = loss_fn(logits, targets.to(args.device))
logger.log_iter(loss)
optimizer.zero_grad()
loss.backward()
optimizer.step()
logger.end_iter()
metrics = evaluator.evaluate(model, args.device, logger.epoch)
saver.save(logger.epoch,
model,
optimizer,
lr_scheduler,
args.device,
metric_val=metrics.get(args.metric_name, None))
logger.end_epoch(metrics)
optim.step_scheduler(lr_scheduler, metrics, logger.epoch)
def train(args):
train_loader = get_loader(args=args)
if args.ckpt_path:
model, ckpt_info = ModelSaver.load_model(args.ckpt_path, args.gpu_ids)
args.start_epoch = ckpt_info['epoch'] + 1
else:
model_fn = models.__dict__[args.model]
args.D_in = train_loader.D_in
model = model_fn(**vars(args))
model = model.to(args.device)
model.train()
# Get optimizer and scheduler
optimizer = optim.get_optimizer(
filter(lambda p: p.requires_grad, model.parameters()), args)
lr_scheduler = optim.get_scheduler(optimizer, args)
if args.ckpt_path:
ModelSaver.load_optimizer(args.ckpt_path, optimizer, lr_scheduler)
# Get logger, evaluator, saver
loss_fn = optim.get_loss_fn(args.loss_fn, args)
logger = TrainLogger(args, len(train_loader.dataset))
eval_loaders = [
get_loader(args, phase='train', is_training=False),
get_loader(args, phase='valid', is_training=False)
]
evaluator = ModelEvaluator(args, eval_loaders, logger, args.max_eval,
args.epochs_per_eval)
saver = ModelSaver(**vars(args))
# Train model
while not logger.is_finished_training():
logger.start_epoch()
for src, tgt in train_loader:
logger.start_iter()
with torch.set_grad_enabled(True):
pred_params = model.forward(src.to(args.device))
ages = src[:, 1]
loss = loss_fn(pred_params, tgt.to(args.device),
ages.to(args.device), args.use_intvl)
#loss = loss_fn(pred_params, tgt.to(args.device), src.to(args.device), args.use_intvl)
logger.log_iter(src, pred_params, tgt, loss)
optimizer.zero_grad()
loss.backward()
optimizer.step()
logger.end_iter()
metrics = evaluator.evaluate(model, args.device, logger.epoch)
# print(metrics)
saver.save(logger.epoch, model, optimizer, lr_scheduler, args.device,\
metric_val=metrics.get(args.metric_name, None))
logger.end_epoch(metrics=metrics)
def train(args):
if args.ckpt_path:
model, ckpt_info = ModelSaver.load_model(args.ckpt_path, args.gpu_ids)
args.start_epoch = ckpt_info['epoch'] + 1
else:
model_fn = models.__dict__[args.model]
model = model_fn(**vars(args))
model = nn.DataParallel(model, args.gpu_ids)
model = model.to(args.device)
model.train()
# Set up population-based training client
pbt_client = PBTClient(args.pbt_server_url, args.pbt_server_port, args.pbt_server_key, args.pbt_config_path)
# Get optimizer and scheduler
parameters = model.module.parameters()
optimizer = optim.get_optimizer(parameters, args, pbt_client)
ModelSaver.load_optimizer(args.ckpt_path, args.gpu_ids, optimizer)
# Get logger, evaluator, saver
train_loader = DataLoader(args, 'train', is_training_set=True)
eval_loaders = [DataLoader(args, 'valid', is_training_set=False)]
evaluator = ModelEvaluator(eval_loaders, args.epochs_per_eval,
args.max_eval, args.num_visuals, use_ten_crop=args.use_ten_crop)
saver = ModelSaver(**vars(args))
for _ in range(args.num_epochs):
optim.update_hyperparameters(model.module, optimizer, pbt_client.hyperparameters())
for inputs, targets in train_loader:
with torch.set_grad_enabled(True):
logits = model.forward(inputs.to(args.device))
loss = F.binary_cross_entropy_with_logits(logits, targets.to(args.device))
optimizer.zero_grad()
loss.backward()
optimizer.step()
metrics = evaluator.evaluate(model, args.device)
metric_val = metrics.get(args.metric_name, None)
ckpt_path = saver.save(model, args.model, optimizer, args.device, metric_val)
pbt_client.save(ckpt_path, metric_val)
if pbt_client.should_exploit():
# Exploit
pbt_client.exploit()
# Load model and optimizer parameters from exploited network
model, ckpt_info = ModelSaver.load_model(pbt_client.parameters_path(), args.gpu_ids)
model = model.to(args.device)
model.train()
ModelSaver.load_optimizer(pbt_client.parameters_path(), args.gpu_ids, optimizer)
# Explore
pbt_client.explore()
def train(args):
"""Train the model on the dataset."""
Dataset = collections.namedtuple('Dataset', 'X y')
assert args.random or args.csv_path, "Please choose either random data or pass a data path"
if args.random:
train_features = sp.random(100, 100)
train_costs = np.random.random((100, ))
test_features = np.random.random((100, 100))
test_costs = np.random.random((100, ))
else:
train_path = Path(args.train_path)
train_df = pd.read_csv(train_path)
train_features, train_costs = preprocess(train_df, args.sdh)
test_path = Path(args.test_path)
test_df = pd.read_csv(test_path)
test_features, test_costs = preprocess(test_df, args.sdh)
train_dataset = Dataset(train_features, train_costs)
test_dataset = Dataset(test_features, test_costs)
# Load the model.
saver = ModelSaver(args.save_dir)
model = get_model(args)
# Instantiate the model saver.
# Train model on dataset, cross-validating on validation set.
model.fit(train_dataset)
saver.save(model)
preds, targets = predict(model, test_dataset)
metrics = {
"R2-score": r2_score(targets, preds),
"MAE": mean_absolute_error(targets, preds)
}
# Print metrics to stdout.
print(metrics)
def train(args):
if args.ckpt_path and not args.use_pretrained:
model, ckpt_info = ModelSaver.load_model(args.ckpt_path, args.gpu_ids)
args.start_epoch = ckpt_info['epoch'] + 1
else:
model_fn = models.__dict__[args.model]
model = model_fn(**vars(args))
if args.use_pretrained:
model.load_pretrained(args.ckpt_path, args.gpu_ids)
model = nn.DataParallel(model, args.gpu_ids)
model = model.to(args.device)
model.train()
# Get optimizer and scheduler
if args.use_pretrained or args.fine_tune:
parameters = model.module.fine_tuning_parameters(
args.fine_tuning_boundary, args.fine_tuning_lr)
else:
parameters = model.parameters()
optimizer = util.get_optimizer(parameters, args)
lr_scheduler = util.get_scheduler(optimizer, args)
if args.ckpt_path and not args.use_pretrained and not args.fine_tune:
ModelSaver.load_optimizer(args.ckpt_path, optimizer, lr_scheduler)
# Get logger, evaluator, saver
cls_loss_fn = util.get_loss_fn(is_classification=True,
dataset=args.dataset,
size_average=False)
data_loader_fn = data_loader.__dict__[args.data_loader]
train_loader = data_loader_fn(args, phase='train', is_training=True)
logger = TrainLogger(args, len(train_loader.dataset),
train_loader.dataset.pixel_dict)
eval_loaders = [data_loader_fn(args, phase='val', is_training=False)]
evaluator = ModelEvaluator(args.do_classify, args.dataset, eval_loaders,
logger, args.agg_method, args.num_visuals,
args.max_eval, args.epochs_per_eval)
saver = ModelSaver(args.save_dir, args.epochs_per_save, args.max_ckpts,
args.best_ckpt_metric, args.maximize_metric)
# Train model
while not logger.is_finished_training():
logger.start_epoch()
for inputs, target_dict in train_loader:
logger.start_iter()
with torch.set_grad_enabled(True):
inputs.to(args.device)
cls_logits = model.forward(inputs)
cls_targets = target_dict['is_abnormal']
cls_loss = cls_loss_fn(cls_logits, cls_targets.to(args.device))
loss = cls_loss.mean()
logger.log_iter(inputs, cls_logits, target_dict,
cls_loss.mean(), optimizer)
optimizer.zero_grad()
loss.backward()
optimizer.step()
logger.end_iter()
util.step_scheduler(lr_scheduler, global_step=logger.global_step)
metrics, curves = evaluator.evaluate(model, args.device, logger.epoch)
saver.save(logger.epoch,
model,
optimizer,
lr_scheduler,
args.device,
metric_val=metrics.get(args.best_ckpt_metric, None))
logger.end_epoch(metrics, curves)
util.step_scheduler(lr_scheduler,
metrics,
epoch=logger.epoch,
best_ckpt_metric=args.best_ckpt_metric)
def train(args):
# Get loader for outer loop training
loader = get_loader(args)
target_image_shape = loader.dataset.target_image_shape
setattr(args, 'target_image_shape', target_image_shape)
# Load model
model_fn = models.__dict__[args.model]
model = model_fn(**vars(args))
model = nn.DataParallel(model, args.gpu_ids)
model = model.to(args.device)
model.train()
# Print model parameters
print('Model parameters: name, size, mean, std')
for name, param in model.named_parameters():
print(name, param.size(), torch.mean(param), torch.std(param))
# Get optimizer and loss
parameters = model.parameters()
optimizer = util.get_optimizer(parameters, args)
loss_fn = util.get_loss_fn(args.loss_fn, args)
z_loss_fn = util.get_loss_fn(args.loss_fn, args)
# Get logger, saver
logger = TrainLogger(args)
saver = ModelSaver(args)
print(f'Logs: {logger.log_dir}')
print(f'Ckpts: {args.save_dir}')
# Train model
logger.log_hparams(args)
batch_size = args.batch_size
while not logger.is_finished_training():
logger.start_epoch()
for input_noise, target_image, mask, z_test_target, z_test in loader:
logger.start_iter()
if torch.cuda.is_available():
input_noise = input_noise.to(args.device) #.cuda()
target_image = target_image.cuda()
mask = mask.cuda()
z_test = z_test.cuda()
z_test_target = z_test_target.cuda()
masked_target_image = target_image * mask
obscured_target_image = target_image * (1.0 - mask)
# Input is noise tensor, target is image
model.train()
with torch.set_grad_enabled(True):
if args.use_intermediate_logits:
logits = model.forward(input_noise).float()
probs = F.sigmoid(logits)
# Debug logits and diffs
logger.debug_visualize(
[logits, logits * mask, logits * (1.0 - mask)],
unique_suffix='logits-train')
else:
probs = model.forward(input_noise).float()
# With backprop, calculate (1) masked loss, loss when mask is applied.
# Loss is done elementwise without reduction, so must take mean after.
# Easier for debugging.
masked_probs = probs * mask
masked_loss = torch.zeros(1,
requires_grad=True).to(args.device)
masked_loss = loss_fn(masked_probs, masked_target_image).mean()
masked_loss.backward()
optimizer.step()
optimizer.zero_grad()
# Without backprop, calculate (2) full loss on the entire image,
# And (3) the obscured loss, region obscured by mask.
model.eval()
with torch.no_grad():
if args.use_intermediate_logits:
logits_eval = model.forward(input_noise).float()
probs_eval = F.sigmoid(logits_eval)
# Debug logits and diffs
logger.debug_visualize([
logits_eval, logits_eval * mask, logits_eval *
(1.0 - mask)
],
unique_suffix='logits-eval')
else:
probs_eval = model.forward(input_noise).float()
masked_probs_eval = probs_eval * mask
masked_loss_eval = torch.zeros(1)
masked_loss_eval = loss_fn(masked_probs_eval,
masked_target_image).mean()
full_loss_eval = torch.zeros(1)
full_loss_eval = loss_fn(probs_eval, target_image).mean()
obscured_probs_eval = probs_eval * (1.0 - mask)
obscured_loss_eval = torch.zeros(1)
obscured_loss_eval = loss_fn(obscured_probs_eval,
obscured_target_image).mean()
# With backprop on only the input z, (4) run one step of z-test and get z-loss
z_optimizer = util.get_optimizer([z_test.requires_grad_()], args)
with torch.set_grad_enabled(True):
if args.use_intermediate_logits:
z_logits = model.forward(z_test).float()
z_probs = F.sigmoid(z_logits)
else:
z_probs = model.forward(z_test).float()
z_loss = torch.zeros(1, requires_grad=True).to(args.device)
z_loss = z_loss_fn(z_probs, z_test_target).mean()
z_loss.backward()
z_optimizer.step()
z_optimizer.zero_grad()
if z_loss < args.max_z_test_loss: # TODO: include this part into the metrics/saver stuff below
# Save MSE on obscured region
final_metrics = {'final/score': obscured_loss_eval.item()}
logger._log_scalars(final_metrics)
print('z loss', z_loss)
print('Final MSE value', obscured_loss_eval)
# TODO: Make a function for metrics - or at least make sure dict includes all possible best ckpt metrics
metrics = {'masked_loss': masked_loss.item()}
saver.save(logger.global_step,
model,
optimizer,
args.device,
metric_val=metrics.get(args.best_ckpt_metric, None))
# Log both train and eval model settings, and visualize their outputs
logger.log_status(
inputs=input_noise,
targets=target_image,
probs=probs,
masked_probs=masked_probs,
masked_loss=masked_loss,
probs_eval=probs_eval,
masked_probs_eval=masked_probs_eval,
obscured_probs_eval=obscured_probs_eval,
masked_loss_eval=masked_loss_eval,
obscured_loss_eval=obscured_loss_eval,
full_loss_eval=full_loss_eval,
z_target=z_test_target,
z_probs=z_probs,
z_loss=z_loss,
save_preds=args.save_preds,
)
logger.end_iter()
logger.end_epoch()
# Last log after everything completes
logger.log_status(
inputs=input_noise,
targets=target_image,
probs=probs,
masked_probs=masked_probs,
masked_loss=masked_loss,
probs_eval=probs_eval,
masked_probs_eval=masked_probs_eval,
obscured_probs_eval=obscured_probs_eval,
masked_loss_eval=masked_loss_eval,
obscured_loss_eval=obscured_loss_eval,
full_loss_eval=full_loss_eval,
z_target=z_test_target,
z_probs=z_probs,
z_loss=z_loss,
save_preds=args.save_preds,
force_visualize=True,
)
def train(args):
"""Run model training."""
print("Start Training ...")
# Get nested namespaces.
model_args = args.model_args
logger_args = args.logger_args
optim_args = args.optim_args
data_args = args.data_args
transform_args = args.transform_args
# Get logger.
print('Getting logger... log to path: {}'.format(logger_args.log_path))
logger = Logger(logger_args.log_path, logger_args.save_dir)
# For conaug, point to the MOCO pretrained weights.
if model_args.ckpt_path and model_args.ckpt_path != 'None':
print("pretrained checkpoint specified : {}".format(
model_args.ckpt_path))
# CL-specified args are used to load the model, rather than the
# ones saved to args.json.
model_args.pretrained = False
ckpt_path = model_args.ckpt_path
model, ckpt_info = ModelSaver.load_model(ckpt_path=ckpt_path,
gpu_ids=args.gpu_ids,
model_args=model_args,
is_training=True)
if not model_args.moco:
optim_args.start_epoch = ckpt_info['epoch'] + 1
else:
optim_args.start_epoch = 1
else:
print(
'Starting without pretrained training checkpoint, random initialization.'
)
# If no ckpt_path is provided, instantiate a new randomly
# initialized model.
model_fn = models.__dict__[model_args.model]
if data_args.custom_tasks is not None:
tasks = NamedTasks[data_args.custom_tasks]
else:
tasks = model_args.__dict__[TASKS] # TASKS = "tasks"
print("Tasks: {}".format(tasks))
model = model_fn(tasks, model_args)
model = nn.DataParallel(model, args.gpu_ids)
# Put model on gpu or cpu and put into training mode.
model = model.to(args.device)
model.train()
print("========= MODEL ==========")
print(model)
# Get train and valid loader objects.
train_loader = get_loader(phase="train",
data_args=data_args,
transform_args=transform_args,
is_training=True,
return_info_dict=False,
logger=logger)
valid_loader = get_loader(phase="valid",
data_args=data_args,
transform_args=transform_args,
is_training=False,
return_info_dict=False,
logger=logger)
# Instantiate the predictor class for obtaining model predictions.
predictor = Predictor(model, args.device)
# Instantiate the evaluator class for evaluating models.
evaluator = Evaluator(logger)
# Get the set of tasks which will be used for saving models
# and annealing learning rate.
eval_tasks = EVAL_METRIC2TASKS[optim_args.metric_name]
# Instantiate the saver class for saving model checkpoints.
saver = ModelSaver(save_dir=logger_args.save_dir,
iters_per_save=logger_args.iters_per_save,
max_ckpts=logger_args.max_ckpts,
metric_name=optim_args.metric_name,
maximize_metric=optim_args.maximize_metric,
keep_topk=logger_args.keep_topk)
# TODO: JBY: handle threshold for fine tuning
if model_args.fine_tuning == 'full': # Fine tune all layers.
pass
else:
# Freeze other layers.
models.PretrainedModel.set_require_grad_for_fine_tuning(
model, model_args.fine_tuning.split(','))
# Instantiate the optimizer class for guiding model training.
optimizer = Optimizer(parameters=model.parameters(),
optim_args=optim_args,
batch_size=data_args.batch_size,
iters_per_print=logger_args.iters_per_print,
iters_per_visual=logger_args.iters_per_visual,
iters_per_eval=logger_args.iters_per_eval,
dataset_len=len(train_loader.dataset),
logger=logger)
if model_args.ckpt_path and not model_args.moco:
# Load the same optimizer as used in the original training.
optimizer.load_optimizer(ckpt_path=model_args.ckpt_path,
gpu_ids=args.gpu_ids)
model_uncertainty = model_args.model_uncertainty
loss_fn = evaluator.get_loss_fn(
loss_fn_name=optim_args.loss_fn,
model_uncertainty=model_args.model_uncertainty,
mask_uncertain=True,
device=args.device)
# Run training
while not optimizer.is_finished_training():
optimizer.start_epoch()
# TODO: JBY, HACK WARNING # What is the hack?
metrics = None
for inputs, targets in train_loader:
optimizer.start_iter()
if optimizer.global_step and optimizer.global_step % optimizer.iters_per_eval == 0 or len(
train_loader.dataset
) - optimizer.iter < optimizer.batch_size:
# Only evaluate every iters_per_eval examples.
predictions, groundtruth = predictor.predict(valid_loader)
# print("predictions: {}".format(predictions))
metrics, curves = evaluator.evaluate_tasks(
groundtruth, predictions)
# Log metrics to stdout.
logger.log_metrics(metrics)
# Add logger for all the metrics for valid_loader
logger.log_scalars(metrics, optimizer.global_step)
# Get the metric used to save model checkpoints.
average_metric = evaluator.evaluate_average_metric(
metrics, eval_tasks, optim_args.metric_name)
if optimizer.global_step % logger_args.iters_per_save == 0:
# Only save every iters_per_save examples directly
# after evaluation.
print("Save global step: {}".format(optimizer.global_step))
saver.save(iteration=optimizer.global_step,
epoch=optimizer.epoch,
model=model,
optimizer=optimizer,
device=args.device,
metric_val=average_metric)
# Step learning rate scheduler.
optimizer.step_scheduler(average_metric)
with torch.set_grad_enabled(True):
logits, embedding = model(inputs.to(args.device))
loss = loss_fn(logits, targets.to(args.device))
optimizer.log_iter(inputs, logits, targets, loss)
optimizer.zero_grad()
loss.backward()
optimizer.step()
optimizer.end_iter()
optimizer.end_epoch(metrics)
logger.log('=== Training Complete ===')
def train(args):
"""Train model.
Args:
args: Command line arguments.
model: Classifier model to train.
"""
# Set up model
model = models.__dict__[args.model](**vars(args))
model = nn.DataParallel(model, args.gpu_ids)
model = model.to(args.device)
# Set up data loader
train_loader, test_loader, classes = get_cifar_loaders(
args.batch_size, args.num_workers)
# Set up optimizer
optimizer = optim.SGD(model.parameters(),
lr=args.learning_rate,
momentum=args.sgd_momentum,
weight_decay=args.weight_decay)
scheduler = optim.lr_scheduler.StepLR(optimizer, args.lr_decay_step,
args.lr_decay_gamma)
loss_fn = nn.CrossEntropyLoss().to(args.device)
# Set up checkpoint saver
saver = ModelSaver(model,
optimizer,
scheduler,
args.save_dir, {'model': args.model},
max_to_keep=args.max_ckpts,
device=args.device)
# Train
logger = TrainLogger(args, len(train_loader.dataset))
while not logger.is_finished_training():
logger.start_epoch()
# Train for one epoch
model.train()
for inputs, labels in train_loader:
logger.start_iter()
with torch.set_grad_enabled(True):
# Forward
outputs = model.forward(inputs.to(args.device))
loss = loss_fn(outputs, labels.to(args.device))
loss_item = loss.item()
# Backward
optimizer.zero_grad()
loss.backward()
optimizer.step()
logger.end_iter({'loss': loss_item})
# Evaluate on validation set
val_loss = evaluate(model, test_loader, loss_fn, device=args.device)
logger.write('[epoch {}]: val_loss: {:.3g}'.format(
logger.epoch, val_loss))
logger.write_summaries({'loss': val_loss}, phase='val')
if logger.epoch in args.save_epochs:
saver.save(logger.epoch, val_loss)
logger.end_epoch()
scheduler.step()
def train(args):
"""Run model training."""
# Get nested namespaces.
model_args = args.model_args
logger_args = args.logger_args
optim_args = args.optim_args
data_args = args.data_args
# Get logger.
logger = Logger(logger_args)
if model_args.ckpt_path:
# CL-specified args are used to load the model, rather than the
# ones saved to args.json.
model_args.pretrained = False
ckpt_path = model_args.ckpt_path
assert False
model, ckpt_info = ModelSaver.load_model(ckpt_path=ckpt_path,
gpu_ids=args.gpu_ids,
model_args=model_args,
is_training=True)
optim_args.start_epoch = ckpt_info['epoch'] + 1
else:
# If no ckpt_path is provided, instantiate a new randomly
# initialized model.
model_fn = models.__dict__[model_args.model]
model = model_fn(model_args)
model = nn.DataParallel(model, args.gpu_ids)
# Put model on gpu or cpu and put into training mode.
model = model.to(args.device)
model.train()
# Get train and valid loader objects.
train_loader = get_loader(phase="train",
data_args=data_args,
is_training=True,
logger=logger)
valid_loader = get_loader(phase="valid",
data_args=data_args,
is_training=False,
logger=logger)
dense_valid_loader = get_loader(phase="dense_valid",
data_args=data_args,
is_training=False,
logger=logger)
# Instantiate the predictor class for obtaining model predictions.
predictor = Predictor(model, args.device)
# Instantiate the evaluator class for evaluating models.
# By default, get best performance on validation set.
evaluator = Evaluator(logger=logger, tune_threshold=True)
# Instantiate the saver class for saving model checkpoints.
saver = ModelSaver(save_dir=logger_args.save_dir,
iters_per_save=logger_args.iters_per_save,
max_ckpts=logger_args.max_ckpts,
metric_name=optim_args.metric_name,
maximize_metric=optim_args.maximize_metric,
keep_topk=True,
logger=logger)
# Instantiate the optimizer class for guiding model training.
optimizer = Optimizer(parameters=model.parameters(),
optim_args=optim_args,
batch_size=data_args.batch_size,
iters_per_print=logger_args.iters_per_print,
iters_per_visual=logger_args.iters_per_visual,
iters_per_eval=logger_args.iters_per_eval,
dataset_len=len(train_loader.dataset),
logger=logger)
if model_args.ckpt_path:
# Load the same optimizer as used in the original training.
optimizer.load_optimizer(ckpt_path=model_args.ckpt_path,
gpu_ids=args.gpu_ids)
loss_fn = evaluator.get_loss_fn(loss_fn_name=optim_args.loss_fn)
# Run training
while not optimizer.is_finished_training():
optimizer.start_epoch()
for inputs, targets in train_loader:
optimizer.start_iter()
if optimizer.global_step % optimizer.iters_per_eval == 0:
# Only evaluate every iters_per_eval examples.
predictions, groundtruth = predictor.predict(valid_loader)
metrics = evaluator.evaluate(groundtruth, predictions)
# Evaluate on dense dataset
dense_predictions, dense_groundtruth = predictor.predict(
dense_valid_loader)
dense_metrics = evaluator.dense_evaluate(
dense_groundtruth, dense_predictions)
# Merge the metrics dicts together
metrics = {**metrics, **dense_metrics}
# Log metrics to stdout.
logger.log_metrics(metrics, phase='valid')
# Log to tb
logger.log_scalars(metrics,
optimizer.global_step,
phase='valid')
if optimizer.global_step % logger_args.iters_per_save == 0:
# Only save every iters_per_save examples directly
# after evaluation.
saver.save(iteration=optimizer.global_step,
epoch=optimizer.epoch,
model=model,
optimizer=optimizer,
device=args.device,
metric_val=metrics[optim_args.metric_name])
# Step learning rate scheduler.
optimizer.step_scheduler(metrics[optim_args.metric_name])
with torch.set_grad_enabled(True):
# Run the minibatch through the model.
logits = model(inputs.to(args.device))
# Compute the minibatch loss.
loss = loss_fn(logits, targets.to(args.device))
# Log the data from this iteration.
optimizer.log_iter(inputs, logits, targets, loss)
# Perform a backward pass.
optimizer.zero_grad()
loss.backward()
optimizer.step()
optimizer.end_iter()
optimizer.end_epoch(metrics)
# Save the most recent model.
saver.save(iteration=optimizer.global_step,
epoch=optimizer.epoch,
model=model,
optimizer=optimizer,
device=args.device,
metric_val=metrics[optim_args.metric_name])
def train(args):
"""Run training loop with the given args.
The function consists of the following steps:
1. Load model: gets the model from a checkpoint or from models/models.py.
2. Load optimizer and learning rate scheduler.
3. Get data loaders and class weights.
4. Get loss functions: cross entropy loss and weighted loss functions.
5. Get logger, evaluator, and saver.
6. Run training loop, evaluate and save model periodically.
"""
model_args = args.model_args
logger_args = args.logger_args
optim_args = args.optim_args
data_args = args.data_args
transform_args = args.transform_args
task_sequence = TASK_SEQUENCES[data_args.task_sequence]
# Get model
if model_args.ckpt_path:
model_args.pretrained = False
model, ckpt_info = ModelSaver.load_model(model_args.ckpt_path,
args.gpu_ids, model_args,
data_args)
args.start_epoch = ckpt_info['epoch'] + 1
else:
model_fn = models.__dict__[model_args.model]
model = model_fn(task_sequence, model_args)
if model_args.hierarchy:
model = models.HierarchyWrapper(model, task_sequence)
model = nn.DataParallel(model, args.gpu_ids)
model = model.to(args.device)
model.train()
# Get optimizer and scheduler
optimizer = util.get_optimizer(model.parameters(), optim_args)
lr_scheduler = util.get_scheduler(optimizer, optim_args)
if model_args.ckpt_path:
ModelSaver.load_optimizer(model_args.ckpt_path, args.gpu_ids,
optimizer, lr_scheduler)
# Get loaders and class weights
train_csv_name = 'train'
if data_args.uncertain_map_path is not None:
train_csv_name = data_args.uncertain_map_path
#TODO: Remove this when we decide which transformation to use in the end
#transforms_imgaug = ImgAugTransform()
train_loader = get_loader(data_args,
transform_args,
train_csv_name,
task_sequence,
data_args.su_train_frac,
data_args.nih_train_frac,
data_args.pocus_train_frac,
data_args.tcga_train_frac,
0,
0,
args.batch_size,
frontal_lateral=model_args.frontal_lateral,
is_training=True,
shuffle=True,
transform=model_args.transform,
normalize=model_args.normalize)
eval_loaders = get_eval_loaders(data_args,
transform_args,
task_sequence,
args.batch_size,
frontal_lateral=model_args.frontal_lateral,
normalize=model_args.normalize)
class_weights = train_loader.dataset.class_weights
print(" class weights:")
print(class_weights)
# Get loss functions
uw_loss_fn = get_loss_fn('cross_entropy',
args.device,
model_args.model_uncertainty,
args.has_tasks_missing,
class_weights=class_weights)
w_loss_fn = get_loss_fn('weighted_loss',
args.device,
model_args.model_uncertainty,
args.has_tasks_missing,
mask_uncertain=False,
class_weights=class_weights)
# Get logger, evaluator and saver
logger = TrainLogger(logger_args, args.start_epoch,
args.num_epochs, args.batch_size,
len(train_loader.dataset), args.device)
eval_args = {}
eval_args['num_visuals'] = logger_args.num_visuals
eval_args['iters_per_eval'] = logger_args.iters_per_eval
eval_args['has_missing_tasks'] = args.has_tasks_missing
eval_args['model_uncertainty'] = model_args.model_uncertainty
eval_args['class_weights'] = class_weights
eval_args['max_eval'] = logger_args.max_eval
eval_args['device'] = args.device
eval_args['optimizer'] = args.optimizer
evaluator = get_evaluator('classification', eval_loaders, logger,
eval_args)
print("Eval Loaders: %d" % len(eval_loaders))
saver = ModelSaver(**vars(logger_args))
metrics = None
lr_step = 0
# Train model
while not logger.is_finished_training():
logger.start_epoch()
for inputs, targets, info_dict in train_loader:
logger.start_iter()
# Evaluate and save periodically
metrics, curves = evaluator.evaluate(model, args.device,
logger.global_step)
logger.plot_metrics(metrics)
metric_val = metrics.get(logger_args.metric_name, None)
assert logger.global_step % logger_args.iters_per_eval != 0 or metric_val is not None
saver.save(logger.global_step,
logger.epoch,
model,
optimizer,
lr_scheduler,
args.device,
metric_val=metric_val)
lr_step = util.step_scheduler(
lr_scheduler,
metrics,
lr_step,
best_ckpt_metric=logger_args.metric_name)
# Input: [batch_size, channels, width, height]
with torch.set_grad_enabled(True):
logits = model.forward(inputs.to(args.device))
unweighted_loss = uw_loss_fn(logits, targets.to(args.device))
weighted_loss = w_loss_fn(logits, targets.to(
args.device)) if w_loss_fn else None
logger.log_iter(inputs, logits, targets, unweighted_loss,
weighted_loss, optimizer)
optimizer.zero_grad()
if args.loss_fn == 'weighted_loss':
weighted_loss.backward()
else:
unweighted_loss.backward()
optimizer.step()
logger.end_iter()
logger.end_epoch(metrics, optimizer)
def train(args):
write_args(args)
model_args = args.model_args
data_args = args.data_args
logger_args = args.logger_args
print(f"Training {logger_args.name}")
power_constraint = PowerConstraint()
possible_inputs = get_md_set(model_args.md_len)
channel = get_channel(data_args.channel, model_args.modelfree, data_args)
model = AutoEncoder(model_args, data_args, power_constraint, channel,
possible_inputs)
enc_scheduler = get_scheduler(model_args.scheduler, model_args.decay,
model_args.patience)
dec_scheduler = get_scheduler(model_args.scheduler, model_args.decay,
model_args.patience)
enc_scheduler.set_model(model.trainable_encoder)
dec_scheduler.set_model(model.trainable_decoder)
dataset_size = data_args.batch_size * data_args.batches_per_epoch * data_args.num_epochs
loader = InputDataloader(data_args.batch_size, data_args.block_length,
dataset_size)
loader = loader.example_generator()
logger = TrainLogger(logger_args.save_dir, logger_args.name,
data_args.num_epochs, logger_args.iters_per_print)
saver = ModelSaver(logger_args.save_dir, logger)
enc_scheduler.on_train_begin()
dec_scheduler.on_train_begin()
while True: # Loop until StopIteration
try:
metrics = None
logger.start_epoch()
for step in range(data_args.batches_per_epoch //
(model_args.train_ratio + 1)):
# encoder train
logger.start_iter()
msg = next(loader)
metrics = model.train_encoder(msg)
logger.log_iter(metrics)
logger.end_iter()
# decoder train
for _ in range(model_args.train_ratio):
logger.start_iter()
msg = next(loader)
metrics = model.train_decoder(msg)
logger.log_iter(metrics)
logger.end_iter()
logger.end_epoch(None)
if model_args.modelfree:
model.Pi.std *= model_args.sigma_decay
enc_scheduler.on_epoch_end(logger.epoch, logs=metrics)
dec_scheduler.on_epoch_end(logger.epoch, logs=metrics)
if logger.has_improved():
saver.save(model)
if logger.notImprovedCounter >= 7:
break
except StopIteration:
break
def train_classifier(args, model):
"""Train a classifier and save its first-layer weights.
Args:
args: Command line arguments.
model: Classifier model to train.
"""
# Set up data loader
train_loader, test_loader, classes = get_data_loaders(
args.dataset, args.batch_size, args.num_workers)
# Set up model
model = nn.DataParallel(model, args.gpu_ids)
model = model.to(args.device)
fd = None
if args.use_fd:
fd = models.filter_discriminator()
fd = nn.DataParallel(fd, args.gpu_ids)
fd = fd.to(args.device)
# Set up optimizer
optimizer = optim.SGD(model.parameters(),
lr=args.learning_rate,
momentum=args.sgd_momentum,
weight_decay=args.weight_decay)
scheduler = optim.lr_scheduler.StepLR(optimizer, args.lr_decay_step,
args.lr_decay_gamma)
if args.model == 'fd':
post_process = nn.Sigmoid()
loss_fn = nn.MSELoss().to(args.device)
else:
post_process = nn.Sequential() # Identity
loss_fn = nn.CrossEntropyLoss().to(args.device)
# Set up checkpoint saver
saver = ModelSaver(model,
optimizer,
scheduler,
args.save_dir, {'model': args.model},
max_to_keep=args.max_ckpts,
device=args.device)
# Train
logger = TrainLogger(args, len(train_loader.dataset))
if args.save_all:
# Save initialized model weights with validation loss as random
saver.save(0, math.log(args.num_classes))
while not logger.is_finished_training():
logger.start_epoch()
# Train for one epoch
model.train()
fd_lambda = get_fd_lambda(args, logger.epoch)
for inputs, labels in train_loader:
logger.start_iter()
with torch.set_grad_enabled(True):
# Forward
outputs = model.forward(inputs.to(args.device))
outputs = post_process(outputs)
loss = loss_fn(outputs, labels.to(args.device))
loss_item = loss.item()
fd_loss = torch.zeros([],
dtype=torch.float32,
device='cuda' if args.gpu_ids else 'cpu')
tp_total = torch.zeros(
[],
dtype=torch.float32,
device='cuda' if args.gpu_ids else 'cpu')
if fd is not None:
# Forward FD
filters = get_layer_weights(model, filter_dict[args.model])
for i in range(0, filters.size(0), args.fd_batch_size):
fd_batch = filters[i:i + args.fd_batch_size]
tp_scores = F.sigmoid(fd.forward(fd_batch))
tp_total += tp_scores.sum()
fd_loss = 1. - tp_total / filters.size(0)
fd_loss_item = fd_loss.item()
loss += fd_lambda * fd_loss
# Backward
optimizer.zero_grad()
loss.backward()
optimizer.step()
logger.end_iter({
'std_loss': loss_item,
'fd_loss': fd_loss_item,
'loss': loss_item + fd_loss_item
})
# Evaluate on validation set
val_loss = evaluate(model,
post_process,
test_loader,
loss_fn,
device=args.device)
logger.write('[epoch {}]: val_loss: {:.3g}'.format(
logger.epoch, val_loss))
logger.write_summaries({'loss': val_loss}, phase='val')
if args.save_all or logger.epoch in args.save_epochs:
saver.save(logger.epoch, val_loss)
logger.end_epoch()
scheduler.step()
def train(args):
if args.ckpt_path:
model, ckpt_info = ModelSaver.load_model(args.ckpt_path, args.gpu_ids)
args.start_epoch = ckpt_info['epoch'] + 1
else:
model_fn = models.__dict__[args.model]
model = model_fn(pretrained=args.pretrained)
if args.pretrained:
model.fc = nn.Linear(model.fc.in_features, args.num_classes)
model = nn.DataParallel(model, args.gpu_ids)
model = model.to(args.device)
model.train()
# Get optimizer and scheduler
parameters = optim.get_parameters(model.module, args)
optimizer = optim.get_optimizer(parameters, args)
lr_scheduler = optim.get_scheduler(optimizer, args)
if args.ckpt_path:
ModelSaver.load_optimizer(args.ckpt_path, optimizer, lr_scheduler)
# Get logger, evaluator, saver
loss_fn = nn.CrossEntropyLoss()
train_loader = WhiteboardLoader(args.data_dir,
'train',
args.batch_size,
shuffle=True,
do_augment=True,
num_workers=args.num_workers)
logger = TrainLogger(args, len(train_loader.dataset))
eval_loaders = [
WhiteboardLoader(args.data_dir,
'val',
args.batch_size,
shuffle=False,
do_augment=False,
num_workers=args.num_workers)
]
evaluator = ModelEvaluator(eval_loaders, logger, args.epochs_per_eval,
args.max_eval, args.num_visuals)
saver = ModelSaver(**vars(args))
# Train model
while not logger.is_finished_training():
logger.start_epoch()
for inputs, targets, paths in train_loader:
logger.start_iter()
with torch.set_grad_enabled(True):
logits = model.forward(inputs.to(args.device))
loss = loss_fn(logits, targets.to(args.device))
logger.log_iter(inputs, logits, targets, paths, loss)
optimizer.zero_grad()
loss.backward()
optimizer.step()
optim.step_scheduler(lr_scheduler, global_step=logger.global_step)
logger.end_iter()
metrics = evaluator.evaluate(model, args.device, logger.epoch)
saver.save(logger.epoch,
model,
args.model,
optimizer,
lr_scheduler,
args.device,
metric_val=metrics.get(args.metric_name, None))
logger.end_epoch(metrics)
optim.step_scheduler(lr_scheduler, metrics, logger.epoch)
def train(args):
"""Run training loop with the given args.
The function consists of the following steps:
1. Load model: gets the model from a checkpoint or from models/models.py.
2. Load optimizer and learning rate scheduler.
3. Get data loaders and class weights.
4. Get loss functions: cross entropy loss and weighted loss functions.
5. Get logger, evaluator, and saver.
6. Run training loop, evaluate and save model periodically.
"""
model_args = args.model_args
logger_args = args.logger_args
optim_args = args.optim_args
data_args = args.data_args
transform_args = args.transform_args
task_sequence = TASK_SEQUENCES[data_args.task_sequence]
print('gpus: ', args.gpu_ids)
# Get model
if model_args.ckpt_path:
model_args.pretrained = False
model, ckpt_info = ModelSaver.load_model(model_args.ckpt_path, args.gpu_ids, model_args, data_args)
if not logger_args.restart_epoch_count:
args.start_epoch = ckpt_info['epoch'] + 1
else:
model_fn = models.__dict__[model_args.model]
model = model_fn(task_sequence, model_args)
num_covars = len(model_args.covar_list.split(';'))
model.transform_model_shape(len(task_sequence), num_covars)
if model_args.hierarchy:
model = models.HierarchyWrapper(model, task_sequence)
model = nn.DataParallel(model, args.gpu_ids)
model = model.to(args.device)
model.train()
# Get optimizer and scheduler
optimizer = util.get_optimizer(model.parameters(), optim_args)
lr_scheduler = util.get_scheduler(optimizer, optim_args)
# The optimizer is loaded from the ckpt if one exists and the new model
# architecture is the same as the old one (classifier is not transformed).
if model_args.ckpt_path and not model_args.transform_classifier:
ModelSaver.load_optimizer(model_args.ckpt_path, args.gpu_ids, optimizer, lr_scheduler)
# Get loaders and class weights
train_csv_name = 'train'
if data_args.uncertain_map_path is not None:
train_csv_name = data_args.uncertain_map_path
# Put all CXR training fractions into one dictionary and pass it to the loader
cxr_frac = {'pocus': data_args.pocus_train_frac, 'hocus': data_args.hocus_train_frac,
'pulm': data_args.pulm_train_frac}
train_loader = get_loader(data_args,
transform_args,
train_csv_name,
task_sequence,
data_args.su_train_frac,
data_args.nih_train_frac,
cxr_frac,
data_args.tcga_train_frac,
args.batch_size,
frontal_lateral=model_args.frontal_lateral,
is_training=True,
shuffle=True,
covar_list=model_args.covar_list,
fold_num=data_args.fold_num)
eval_loaders = get_eval_loaders(data_args,
transform_args,
task_sequence,
args.batch_size,
frontal_lateral=model_args.frontal_lateral,
covar_list=model_args.covar_list,
fold_num=data_args.fold_num)
class_weights = train_loader.dataset.class_weights
# Get loss functions
uw_loss_fn = get_loss_fn(args.loss_fn, args.device, model_args.model_uncertainty,
args.has_tasks_missing, class_weights=class_weights)
w_loss_fn = get_loss_fn('weighted_loss', args.device, model_args.model_uncertainty,
args.has_tasks_missing, class_weights=class_weights)
# Get logger, evaluator and saver
logger = TrainLogger(logger_args, args.start_epoch, args.num_epochs, args.batch_size,
len(train_loader.dataset), args.device, normalization=transform_args.normalization)
eval_args = {}
eval_args['num_visuals'] = logger_args.num_visuals
eval_args['iters_per_eval'] = logger_args.iters_per_eval
eval_args['has_missing_tasks'] = args.has_tasks_missing
eval_args['model_uncertainty'] = model_args.model_uncertainty
eval_args['class_weights'] = class_weights
eval_args['max_eval'] = logger_args.max_eval
eval_args['device'] = args.device
eval_args['optimizer'] = optimizer
evaluator = get_evaluator('classification', eval_loaders, logger, eval_args)
print("Eval Loaders: %d" % len(eval_loaders))
saver = ModelSaver(**vars(logger_args))
metrics = None
lr_step = 0
# Train model
while not logger.is_finished_training():
logger.start_epoch()
for inputs, targets, info_dict, covars in train_loader:
logger.start_iter()
# Evaluate and save periodically
metrics, curves = evaluator.evaluate(model, args.device, logger.global_step)
logger.plot_metrics(metrics)
metric_val = metrics.get(logger_args.metric_name, None)
assert logger.global_step % logger_args.iters_per_eval != 0 or metric_val is not None
saver.save(logger.global_step, logger.epoch, model, optimizer, lr_scheduler, args.device,
metric_val=metric_val, covar_list=model_args.covar_list)
lr_step = util.step_scheduler(lr_scheduler, metrics, lr_step, best_ckpt_metric=logger_args.metric_name)
# Input: [batch_size, channels, width, height]
with torch.set_grad_enabled(True):
# with torch.autograd.set_detect_anomaly(True):
logits = model.forward([inputs.to(args.device), covars])
# Scale up TB so that it's loss is counted for more if upweight_tb is True.
if model_args.upweight_tb is True:
tb_targets = targets.narrow(1, 0, 1)
findings_targets = targets.narrow(1, 1, targets.shape[1] - 1)
tb_targets = tb_targets.repeat(1, targets.shape[1] - 1)
new_targets = torch.cat((tb_targets, findings_targets), 1)
tb_logits = logits.narrow(1, 0, 1)
findings_logits = logits.narrow(1, 1, logits.shape[1] - 1)
tb_logits = tb_logits.repeat(1, logits.shape[1] - 1)
new_logits = torch.cat((tb_logits, findings_logits), 1)
else:
new_logits = logits
new_targets = targets
unweighted_loss = uw_loss_fn(new_logits, new_targets.to(args.device))
weighted_loss = w_loss_fn(logits, targets.to(args.device)) if w_loss_fn else None
logger.log_iter(inputs, logits, targets, unweighted_loss, weighted_loss, optimizer)
optimizer.zero_grad()
if args.loss_fn == 'weighted_loss':
weighted_loss.backward()
else:
unweighted_loss.backward()
optimizer.step()
logger.end_iter()
logger.end_epoch(metrics, optimizer)
