import torch.utils.data as data import torch import logging from timm.data.distributed_sampler import RepeatAugSampler from .xray_transform import build_transform_xray, build_seg_transform from .chest_dset import MedFMC_Chest, ShenZhenCXR from .vindr import VinDrNew from .rsna import RSNA, RSNA_3Class, RSNASegmentDataset from .mimic import MIMIC_Pretrain from .world_model_transform import build_world_model_transform from .xray_transform_add import build_world_model_dual_transform from .nih import NIH from .chexpert import CheXpert from .siim import SIIM def build_dataset(args, split='train', ten_crop=False): transform = build_transform_xray(args, is_train=(split == 'train'), ten_crop=ten_crop) if args.dataset == 'vindr_new': logging.info(f'Dataset VinDr New: Pct={args.data_pct}') dataset = VinDrNew(transform=transform, data_pct=args.data_pct, split=split, dataset_seed=args.dataset_seed) elif args.dataset == 'rsna': logging.info(f'Dataset RSNA: Pct={args.data_pct}') dataset = RSNA(transform=transform, data_pct=args.data_pct, split=split) elif args.dataset == 'rsna_3cls': dataset = RSNA_3Class(transform=transform, data_pct=args.data_pct, split=split) elif args.dataset == 'medfmc': logging.info(f'Dataset MedFMC: {args.fmc_shots} Shots, No.{args.fmc_exp_num}') dataset = MedFMC_Chest(exp_num=args.fmc_exp_num, shots=args.fmc_shots, split=split, transform=transform) elif args.dataset == 'nih': logging.info(f'Dataset NIH: Pct={args.data_pct}') dataset = NIH(split=split, data_pct=args.data_pct, transform=transform, return_label=True) elif args.dataset == 'shenzhen': logging.info(f'Dataset ShenZhen') dataset = ShenZhenCXR(split=split, transform=transform) elif args.dataset == 'chex': dataset = CheXpert(transform=transform, return_label=True, data_pct=args.data_pct, split=split) else: raise NotImplementedError if args.dataset_cat > 1 and split == 'train': logging.info(f'Concat Dataset x{args.dataset_cat}') dataset = data.ConcatDataset([dataset for _ in range(args.dataset_cat)]) dataset.num_classes = dataset.datasets[0].num_classes return dataset def build_seg_dataset(args, split='train'): transform = build_seg_transform(args, is_train=(split=='train')) if args.dataset == 'siim': dataset = SIIM(transform=transform, split=split, data_pct=args.data_pct, balance=args.dataset_balance) elif args.dataset == 'rsna': dataset = RSNASegmentDataset(split=split, transform=transform, data_pct=args.data_pct) else: raise NotImplementedError if args.dataset_cat > 1 and split == 'train': logging.info(f'Concat Dataset x{args.dataset_cat}') dataset = data.ConcatDataset([dataset for _ in range(args.dataset_cat)]) dataset.num_classes = dataset.datasets[0].num_classes return dataset def build_pretrain_dataset(args, ssl_type): if ssl_type == 'iwm': logging.info('Build World Model Transform') transform = build_world_model_transform(args) elif 'iwm_dual' in ssl_type: transform = build_world_model_dual_transform(args) else: transform = build_transform_xray(args, is_train=True) if args.dataset == 'mimic': logging.info('Use MIMIC dataset') dataset = MIMIC_Pretrain(transform=transform, split='all', data_pct=args.data_pct, preload=args.preload_dataset, data_postfix=args.data_postfix, include_lateral=args.include_lateral) else: logging.info(f'Use Hybrid dataset {args.dataset}') d_list = [] if 'nih' in args.dataset: d_list.append(NIH(transform=transform, data_pct=args.data_pct, return_label=False)) if 'chex' in args.dataset: d_list.append(CheXpert(transform=transform, data_pct=args.data_pct, return_label=False, include_lateral=args.include_lateral)) if 'mimic' in args.dataset: d_list.append(MIMIC_Pretrain(transform=transform, split='all', data_pct=args.data_pct, data_postfix=args.data_postfix, include_lateral=args.include_lateral)) dataset = data.ConcatDataset(d_list) logging.info(f'Total Images: {len(dataset)}') return dataset def get_loader(args, dataset, is_train=True, persistent_workers=True, custom_bs=None): if is_train: if args.num_aug_repeats: sampler = RepeatAugSampler(dataset, num_repeats=args.num_aug_repeats) logging.info(f'Use Repeated Aug Sampler: {args.num_aug_repeats}') else: num_tasks = args.world_size global_rank = args.rank sampler = data.DistributedSampler( dataset, num_replicas=num_tasks, rank=global_rank, shuffle=True ) else: sampler = data.SequentialSampler(dataset) this_bs = args.batch_size if is_train else args.batch_size * 2 this_bs = custom_bs if custom_bs is not None else this_bs return data.DataLoader( dataset, sampler=sampler, batch_size=this_bs, num_workers=args.num_workers, pin_memory=args.pin_mem, drop_last=is_train, persistent_workers=persistent_workers ) def get_infinite_loader(args, dataset, batch_size, custom_iter=None): # num_tasks = args.world_size # global_rank = args.rank num_iters = custom_iter if custom_iter is not None else args.num_iters num_samples = batch_size * num_iters if args.data_seed is not None: generator = torch.Generator() generator.manual_seed(args.data_seed) logging.info(f'Use Data Seed {args.data_seed}') else: generator = None logging.info(f'No Data Seed') sampler = data.RandomSampler(dataset, replacement=(not args.data_no_replace), num_samples=num_samples, generator=generator) # sampler = DistributedProxySampler(sampler, num_replicas=num_tasks, rank=global_rank) sampler = data.BatchSampler(sampler, batch_size, drop_last=True) return data.DataLoader( dataset, batch_sampler=sampler, num_workers=args.num_workers, pin_memory=args.pin_mem, persistent_workers=True )