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- # Copyright (c) 2020 PaddlePaddle Authors. All Rights Reserved.
- #
- # Licensed under the Apache License, Version 2.0 (the "License");
- # you may not use this file except in compliance with the License.
- # You may obtain a copy of the License at
- #
- # http://www.apache.org/licenses/LICENSE-2.0
- #
- # Unless required by applicable law or agreed to in writing, software
- # distributed under the License is distributed on an "AS IS" BASIS,
- # WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
- # See the License for the specific language governing permissions and
- # limitations under the License.
-
- import random
- import argparse
-
- import paddle
- import numpy as np
-
- from medicalseg.cvlibs import manager, Config
- from medicalseg.utils import get_sys_env, logger
- from medicalseg.core import train
- import nnunet
-
-
- def parse_args():
- parser = argparse.ArgumentParser(description='Model training')
- # params of training
- parser.add_argument(
- "--config", dest="cfg", help="The config file.", default=None, type=str)
- parser.add_argument(
- '--iters',
- dest='iters',
- help='iters for training',
- type=int,
- default=None)
- parser.add_argument(
- '--batch_size',
- dest='batch_size',
- help='Mini batch size of one gpu or cpu',
- type=int,
- default=None)
- parser.add_argument(
- '--learning_rate',
- dest='learning_rate',
- help='Learning rate',
- type=float,
- default=None)
- parser.add_argument(
- '--save_interval',
- dest='save_interval',
- help='How many iters to save a model snapshot once during training.',
- type=int,
- default=1000)
- parser.add_argument(
- '--resume_model',
- dest='resume_model',
- help='The path of resume model',
- type=str,
- default=None)
- parser.add_argument(
- '--save_dir',
- dest='save_dir',
- help='The directory for saving the model snapshot',
- type=str,
- default='./output')
- parser.add_argument(
- '--keep_checkpoint_max',
- dest='keep_checkpoint_max',
- help='Maximum number of checkpoints to save',
- type=int,
- default=5)
- parser.add_argument(
- '--num_workers',
- dest='num_workers',
- help='Num workers for data loader',
- type=int,
- default=0)
- parser.add_argument(
- '--do_eval',
- dest='do_eval',
- help='Eval while training',
- action='store_true')
- parser.add_argument(
- '--log_iters',
- dest='log_iters',
- help='Display logging information at every log_iters',
- default=100,
- type=int)
- parser.add_argument(
- '--use_vdl',
- dest='use_vdl',
- help='Whether to record the data to VisualDL during training',
- action='store_true')
- parser.add_argument(
- '--seed',
- dest='seed',
- help='Set the random seed during training.',
- default=None,
- type=int)
- parser.add_argument(
- '--data_format',
- dest='data_format',
- help='Data format that specifies the layout of input. It can be "NCHW" or "NHWC". Default: "NCHW".',
- type=str,
- default='NCHW')
- parser.add_argument(
- '--profiler_options',
- type=str,
- default=None,
- help='The option of train profiler. If profiler_options is not None, the train ' \
- 'profiler is enabled. Refer to the medseg/utils/train_profiler.py for details.'
- )
- parser.add_argument(
- '--nnunet', dest='nnunet', help='nnunet training', action='store_true')
- parser.add_argument(
- "--precision",
- default="fp32",
- type=str,
- choices=["fp32", "fp16"],
- help="Use AMP (Auto mixed precision) if precision='fp16'. If precision='fp32', the training is normal."
- )
-
- parser.add_argument('--sw_num', default=None, type=int, help='sw_num')
-
- parser.add_argument(
- '--is_save_data', default=True, type=eval, help='warmup')
-
- parser.add_argument(
- '--has_dataset_json', default=True, type=eval, help='has_dataset_json')
- return parser.parse_args()
-
-
- def main(args):
-
- if args.seed is not None:
- paddle.seed(args.seed)
- np.random.seed(args.seed)
- random.seed(args.seed)
-
- env_info = get_sys_env()
- info = ['{}: {}'.format(k, v) for k, v in env_info.items()]
- info = '\n'.join(['', format('Environment Information', '-^48s')] + info +
- ['-' * 48])
- logger.info(info)
-
- place = 'gpu' if env_info['Paddle compiled with cuda'] and env_info[
- 'GPUs used'] else 'cpu'
-
- paddle.set_device(place)
- if not args.cfg:
- raise RuntimeError('No configuration file specified.')
-
- cfg = Config(
- args.cfg,
- learning_rate=args.learning_rate,
- iters=args.iters,
- batch_size=args.batch_size)
-
- # Only support for the DeepLabv3+ model
- if args.data_format == 'NHWC':
- if cfg.dic['model']['type'] != 'DeepLabV3P':
- raise ValueError(
- 'The "NHWC" data format only support the DeepLabV3P model!')
- cfg.dic['model']['data_format'] = args.data_format
- cfg.dic['model']['backbone']['data_format'] = args.data_format
- loss_len = len(cfg.dic['loss']['types'])
- for i in range(loss_len):
- cfg.dic['loss']['types'][i]['data_format'] = args.data_format
-
- train_dataset = cfg.train_dataset
- if train_dataset is None:
- raise RuntimeError(
- 'The training dataset is not specified in the configuration file.')
- elif len(train_dataset) == 0:
- raise ValueError(
- 'The length of train_dataset is 0. Please check if your dataset is valid'
- )
- val_dataset = cfg.val_dataset if args.do_eval else None
- losses = cfg.loss
-
- msg = '\n---------------Config Information---------------\n'
- msg += str(cfg)
- msg += '------------------------------------------------'
- logger.info(msg)
-
- if args.nnunet:
- nnunet.core.train(
- cfg.model,
- train_dataset,
- val_dataset=val_dataset,
- optimizer=cfg.optimizer,
- save_dir=args.save_dir,
- iters=cfg.iters,
- batch_size=cfg.batch_size,
- resume_model=args.resume_model,
- save_interval=args.save_interval,
- log_iters=args.log_iters,
- num_workers=args.num_workers,
- use_vdl=args.use_vdl,
- losses=losses,
- keep_checkpoint_max=args.keep_checkpoint_max,
- precision=args.precision,
- profiler_options=args.profiler_options,
- to_static_training=cfg.to_static_training)
- else:
- train(
- cfg.model,
- train_dataset,
- val_dataset=val_dataset,
- optimizer=cfg.optimizer,
- save_dir=args.save_dir,
- iters=cfg.iters,
- batch_size=cfg.batch_size,
- resume_model=args.resume_model,
- save_interval=args.save_interval,
- log_iters=args.log_iters,
- num_workers=args.num_workers,
- use_vdl=args.use_vdl,
- losses=losses,
- keep_checkpoint_max=args.keep_checkpoint_max,
- profiler_options=args.profiler_options,
- to_static_training=cfg.to_static_training,
- sw_num=args.sw_num,
- is_save_data=args.is_save_data,
- has_dataset_json=args.has_dataset_json)
-
-
- if __name__ == '__main__':
- args = parse_args()
- main(args)
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