From 883c5f2b5d88103923bf1f563c26552aba198d40 Mon Sep 17 00:00:00 2001 From: qic999 Date: Mon, 8 Sep 2025 19:04:25 -0400 Subject: [PATCH 1/3] update --- ...sv1_masking_hungarian20_mhsa32_epo250.yaml | 32 + ...masklossv1_masking_hungarian20_mhsa32.yaml | 32 + inference.py | 55 +- measure_dice.py | 5 +- split/brats_folds.json | 3781 +++++++++++++++++ split/hv_folds.json | 1547 +++++++ 6 files changed, 5430 insertions(+), 22 deletions(-) create mode 100755 configs/Brats/GeTU500Region_128128128_max2former_ms-432_decl3_d192_mds_mw1.0_disds_bs2x8_adamw_warmup10_lr3e-4_masklossv1_masking_hungarian20_mhsa32_epo250.yaml create mode 100755 configs/Vessel/GeTU008_64192192_max2former_ms-432_decl3_d192_bT-d1_mds_mw1.0_disds_bs2x8_adamw_warmup10_lr3e-4_masklossv1_masking_hungarian20_mhsa32.yaml create mode 100644 split/brats_folds.json create mode 100644 split/hv_folds.json diff --git a/configs/Brats/GeTU500Region_128128128_max2former_ms-432_decl3_d192_mds_mw1.0_disds_bs2x8_adamw_warmup10_lr3e-4_masklossv1_masking_hungarian20_mhsa32_epo250.yaml b/configs/Brats/GeTU500Region_128128128_max2former_ms-432_decl3_d192_mds_mw1.0_disds_bs2x8_adamw_warmup10_lr3e-4_masklossv1_masking_hungarian20_mhsa32_epo250.yaml new file mode 100755 index 0000000..b445f31 --- /dev/null +++ b/configs/Brats/GeTU500Region_128128128_max2former_ms-432_decl3_d192_mds_mw1.0_disds_bs2x8_adamw_warmup10_lr3e-4_masklossv1_masking_hungarian20_mhsa32_epo250.yaml @@ -0,0 +1,32 @@ +model: Generic_TransUNet_max_ppbp +model_params: + is_masked_attn: True + max_dec_layers: 3 + is_max_bottleneck_transformer: False + # vit_depth: 1 + max_msda: '' + is_max_ms: True # num_feature_levels: 3; default fpn downsampled to os244 + max_ms_idxs: [-4, -3, -2] + max_hidden_dim: 192 + mw: 1.0 + is_max_ds: True + is_masking: True + is_max_hungarian: True + num_queries: 20 + is_max_cls: True + is_mhsa_float32: True + + +max_loss_cal: 'v1' +disable_ds: True +initial_lr: 3e-4 +optim_name: adamw +lrschedule: warmup_cosine +resume: '' +warmup_epochs: 10 +max_num_epochs: 2500 # used 8 cards as default +task: Task500_BraTS2021 +network: 3d_fullres +network_trainer: nnUNetTrainerV2_DDP +hdfs_base: GeTU500Region_128128128_max2former_ms-432_decl3_d192_mds_mw1.0_disds_bs2x8_adamw_warmup10_lr3e-4_masklossv1_masking_hungarian20_mhsa32_epo250 + diff --git a/configs/Vessel/GeTU008_64192192_max2former_ms-432_decl3_d192_bT-d1_mds_mw1.0_disds_bs2x8_adamw_warmup10_lr3e-4_masklossv1_masking_hungarian20_mhsa32.yaml b/configs/Vessel/GeTU008_64192192_max2former_ms-432_decl3_d192_bT-d1_mds_mw1.0_disds_bs2x8_adamw_warmup10_lr3e-4_masklossv1_masking_hungarian20_mhsa32.yaml new file mode 100755 index 0000000..c75a1ab --- /dev/null +++ b/configs/Vessel/GeTU008_64192192_max2former_ms-432_decl3_d192_bT-d1_mds_mw1.0_disds_bs2x8_adamw_warmup10_lr3e-4_masklossv1_masking_hungarian20_mhsa32.yaml @@ -0,0 +1,32 @@ +model: Generic_TransUNet_max_ppbp +model_params: + is_masked_attn: True + max_dec_layers: 3 + is_max_bottleneck_transformer: False + # vit_depth: 1 + max_msda: '' + is_max_ms: True # num_feature_levels: 3; default fpn downsampled to os244 + max_ms_idxs: [-4, -3, -2] + max_hidden_dim: 192 + mw: 1.0 + is_max_ds: True + is_masking: True + is_max_hungarian: True + num_queries: 20 + is_max_cls: True + is_mhsa_float32: True + + +max_loss_cal: 'v1' +disable_ds: True +initial_lr: 3e-4 +optim_name: adamw +lrschedule: warmup_cosine +resume: '' +warmup_epochs: 10 +max_num_epochs: 2500 # used 8 cards as default +task: Task008_HepaticVessel +network: 3d_fullres +network_trainer: nnUNetTrainerV2_DDP +hdfs_base: GeTU008_64192192_max2former_ms-432_decl3_d192_bT-d1_mds_mw1.0_disds_bs2x8_adamw_warmup10_lr3e-4_masklossv1_masking_hungarian20_mhsa32 + diff --git a/inference.py b/inference.py index 381649d..ec9b803 100644 --- a/inference.py +++ b/inference.py @@ -7,7 +7,7 @@ import torch.nn as nn import torch.nn.functional as F import sys - +from typing import Union, Tuple, List from glob import glob from scipy.ndimage.filters import gaussian_filter @@ -21,7 +21,6 @@ from collections import OrderedDict from nn_transunet.networks.neural_network import no_op from torch.cuda.amp import autocast -from typing import Union, Tuple, List from nn_transunet.networks.transunet3d_model import InitWeights_He @@ -47,6 +46,7 @@ def get_flops(model, test_data): parser.add_argument("--disable_split", default=False, action="store_true", help='just use raw_data_dir, do not use split!') parser.add_argument("--model_latest", default=False, action="store_true", help='') parser.add_argument("--model_final", default=False, action="store_true", help='') +parser.add_argument("--model_file", default=None, type=str) parser.add_argument("--mixed_precision", default=True, type=bool, help='') parser.add_argument("--measure_param_flops", default=False, action="store_true", help='') @@ -96,7 +96,7 @@ def get_flops(model, test_data): output_folder = output_folder_name + '/' + fold_name plans_path = os.path.join(output_folder_name, 'plans.pkl') shutil.copy(plans_file, plans_path) - +print('plans_file', plans_file) val_keys = None if not args.disable_split: splits_file = os.path.join(dataset_directory, "splits_final.pkl") @@ -111,15 +111,19 @@ def get_flops(model, test_data): print("output folder for snapshot loading exists: ", output_folder) prefix = "version5" planfile = plans_path -if os.path.exists(output_folder + '/' + 'model_best.model') and not args.model_latest and not args.model_final: - print("load model_best.model") - modelfile = output_folder + '/' + 'model_best.model' -elif os.path.exists(output_folder + '/' + 'model_final_checkpoint.model') and not args.model_latest: - print("load model_final_checkpoint.model") - modelfile = output_folder + '/' + 'model_final_checkpoint.model' +if not args.model_file: + if os.path.exists(output_folder + '/' + 'model_best.model') and not args.model_latest and not args.model_final: + print("load model_best.model") + modelfile = output_folder + '/' + 'model_best.model' + elif os.path.exists(output_folder + '/' + 'model_final_checkpoint.model') and not args.model_latest: + print("load model_final_checkpoint.model") + modelfile = output_folder + '/' + 'model_final_checkpoint.model' + else: + print("load model_latest.model") + modelfile = output_folder + '/' + 'model_latest.model' else: - print("load model_latest.model") - modelfile = output_folder + '/' + 'model_latest.model' + print("load model from", args.model_file) + modelfile = output_folder + '/' + args.model_file info = pickle.load(open(planfile, "rb")) plan_data = {} @@ -138,7 +142,8 @@ def get_flops(model, test_data): num_classes += 1 # add background base_num_features = plan_data['plans']['base_num_features'] -if '005' in plans_file or '004' in plans_file or '001' in plans_file or '002' in plans_file : # multiphase task e.g, Brats +# 解决size mismatch，因为路径里有001出现，导致resolution_index变成0 +if 'Task005' in plans_file or 'Task004' in plans_file or 'Task001' in plans_file or 'Task002' in plans_file or 'Task1006' in plans_file: # multiphase task e.g, Brats resolution_index = 0 patch_size = plan_data['plans']['plans_per_stage'][resolution_index]['patch_size'] @@ -422,9 +427,12 @@ def Inference3D_multiphase(rawf, save_path=None, mode='nii'): # nnunet.training.network_training.nnUNetTrainer -> nnUNetTrainer.preprocess_patient(data_files) # for new unseen data. # nnunet.preprocessing.preprocessing -> GenericPreprocessor.preprocess_test_case(data_files, current_spacing) will do ImageCropper.crop_from_list_of_files(data_files) and resample_and_normalize # return data, seg, properties + data_files = [] # an element in lists_of_list: [[case0_0000.nii.gz, case0_0001.nii.gz], [case1_0000.nii.gz, case1_0001.nii.gz], ...] for i in range(num_input_channels): - data_files.append(rawf.replace('0000', '000'+str(i))) + # data_files.append(rawf.replace('0000', '000'+str(i))) + data_files.append(rawf+'_000'+str(i)+'.nii.gz') + from nnunet.preprocessing.cropping import ImageCropper from nnunet.preprocessing.preprocessing import GenericPreprocessor @@ -463,11 +471,12 @@ def Inference3D_multiphase(rawf, save_path=None, mode='nii'): if save_path is None: save_dir = rawf.replace(".nii.gz", "_pred.nii.gz") else: - uid = rawf.split("/")[-1].replace('_0000', '') - for i in range(num_input_channels): - uid = uid.replace('_000'+str(i), '') + # uid = rawf.split("/")[-1].replace('_0000', '') + # for i in range(num_input_channels): + # uid = uid.replace('_000'+str(i), '') + uid = rawf.split("/")[-1]+".nii.gz" save_dir = os.path.join(save_path, uid) - + # breakpoint() if args.save_npz: save_npz_dir = save_path.replace("nnUNet_inference", "nnUNet_inference_npz") os.makedirs(save_npz_dir, exist_ok=True) @@ -502,7 +511,7 @@ def Inference3D_multiphase(rawf, save_path=None, mode='nii'): def Inference3D(rawf, save_path=None): - arr_raw, sitk_raw = _get_arr(rawf) + arr_raw, sitk_raw = _get_arr(rawf+'_0000.nii.gz') origin_spacing = sitk_raw.GetSpacing() rai_size = sitk_raw.GetSize() print("origin_spacing: ", origin_spacing) @@ -588,6 +597,8 @@ def Inference3D(rawf, save_path=None): _save_path = os.path.join(save_path, 'ds_'+str(idx)) os.makedirs(_save_path, exist_ok=True) save_dir = os.path.join(_save_path, uid) + + if args.save_npz: # added save_npz_dir = save_path.replace("nnUNet_inference", "nnUNet_inference_npz") save_npz_dir = os.path.join(save_npz_dir, 'ds_'+str(idx)) @@ -644,7 +655,7 @@ def Inference3D(rawf, save_path=None): else: #change name to msd format uid = rawf.split("/")[-1].replace('_0000', '') - save_dir = os.path.join(save_path, uid) + save_dir = os.path.join(save_path, uid+'.nii.gz') if args.save_npz: save_npz_dir = save_path.replace("nnUNet_inference", "nnUNet_inference_npz") @@ -671,7 +682,11 @@ def Inference3D(rawf, save_path=None): print(args.save_folder) os.makedirs(args.save_folder, exist_ok=True) -rawf = sorted(glob(raw_data_dir+"/*.nii.gz")) +root_dir = os.getenv('nnUNet_preprocessed')+"/"+task+"/gt_segmentations/" +base_names = os.listdir(root_dir) +base_names.sort() +rawf = [os.path.join(raw_data_dir, i.split('.nii')[0]) for i in base_names if not '._' in i] + if val_keys is not None: valid_rawf = [i for i in rawf if os.path.basename(i).replace('.nii.gz', '').replace('_0000', '') in val_keys] else: diff --git a/measure_dice.py b/measure_dice.py index fc04b60..1c9e6b6 100644 --- a/measure_dice.py +++ b/measure_dice.py @@ -10,7 +10,7 @@ parser = argparse.ArgumentParser() parser.add_argument('--config', default='', type=str, metavar='FILE', help='YAML config file specifying default arguments') parser.add_argument("--eval_mode", default='Val', type=str,) -parser.add_argument("--fold", default=0, help='0, 1, ..., 5 or \'all\'') +parser.add_argument("--fold", default=0, help='0, 1, ..., 5 or \'all\'', ) parser.add_argument("--raw_data_dir", default='') parser.add_argument("--pred_dir", default='') parser.add_argument("--disable_split", default=False, action="store_true", help='just use raw_data_dir, do not use split!') @@ -57,6 +57,7 @@ def each_cases_metric(gt, pred, voxel_spacing): classes_num = int(classes_num) class_wise_metric = np.zeros((classes_num-1, 1)) + if args.config.find('500Region') != -1: regions = {"whole tumor": (1, 2, 3), "tumor core": (2, 3), @@ -76,7 +77,7 @@ def each_cases_metric(gt, pred, voxel_spacing): network, task, network_trainer, hdfs_base = cfg['network'], cfg['task'], cfg['network_trainer'], cfg['hdfs_base'] -fold_name = args.fold if args.fold.startswith('all') else 'fold_'+str(args.fold) +fold_name = args.fold if str(args.fold).startswith('all') else 'fold_'+str(args.fold) all_results = [] label_dir = os.getenv('nnUNet_preprocessed')+"/"+task+"/gt_segmentations/" # "/home/SENSETIME/luoxiangde.vendor/Projects/ABDSeg/data/ABDSeg/data/labelsTs/" diff --git a/split/brats_folds.json b/split/brats_folds.json new file mode 100644 index 0000000..02fb0b3 --- /dev/null +++ b/split/brats_folds.json @@ -0,0 +1,3781 @@ +{ + "0": { + "train": [ + "BraTS2021_00002", + "BraTS2021_00003", + "BraTS2021_00005", + "BraTS2021_00006", + "BraTS2021_00008", + "BraTS2021_00011", + "BraTS2021_00012", + "BraTS2021_00014", + "BraTS2021_00017", + "BraTS2021_00018", + "BraTS2021_00019", + "BraTS2021_00020", + "BraTS2021_00021", + "BraTS2021_00022", + "BraTS2021_00025", + "BraTS2021_00026", + "BraTS2021_00030", + "BraTS2021_00032", + "BraTS2021_00033", + "BraTS2021_00036", + "BraTS2021_00043", + "BraTS2021_00044", + "BraTS2021_00048", + "BraTS2021_00049", + "BraTS2021_00052", + "BraTS2021_00053", + "BraTS2021_00054", + "BraTS2021_00056", + "BraTS2021_00058", + "BraTS2021_00059", + "BraTS2021_00060", + "BraTS2021_00061", + "BraTS2021_00062", + "BraTS2021_00063", + "BraTS2021_00064", + "BraTS2021_00066", + "BraTS2021_00068", + "BraTS2021_00071", + "BraTS2021_00072", + "BraTS2021_00074", + "BraTS2021_00077", + "BraTS2021_00081", + "BraTS2021_00084", + "BraTS2021_00090", + "BraTS2021_00094", + "BraTS2021_00095", + "BraTS2021_00096", + "BraTS2021_00097", + "BraTS2021_00098", + "BraTS2021_00100", + "BraTS2021_00101", + "BraTS2021_00103", + "BraTS2021_00105", + "BraTS2021_00108", + "BraTS2021_00109", + "BraTS2021_00111", + "BraTS2021_00112", + "BraTS2021_00113", + "BraTS2021_00115", + "BraTS2021_00116", + "BraTS2021_00118", + "BraTS2021_00120", + "BraTS2021_00121", + "BraTS2021_00122", + "BraTS2021_00124", + "BraTS2021_00128", + "BraTS2021_00131", + "BraTS2021_00132", + "BraTS2021_00133", + "BraTS2021_00134", + "BraTS2021_00138", + "BraTS2021_00139", + "BraTS2021_00142", + "BraTS2021_00143", + "BraTS2021_00146", + "BraTS2021_00147", + "BraTS2021_00148", + "BraTS2021_00149", + "BraTS2021_00150", + "BraTS2021_00151", + "BraTS2021_00154", + "BraTS2021_00155", + "BraTS2021_00156", + "BraTS2021_00157", + "BraTS2021_00158", + "BraTS2021_00159", + 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"BraTS2021_00574", + "BraTS2021_00575", + "BraTS2021_00576", + "BraTS2021_00577", + "BraTS2021_00578", + "BraTS2021_00579", + "BraTS2021_00580", + "BraTS2021_00581", + "BraTS2021_00582", + "BraTS2021_00584", + "BraTS2021_00588", + "BraTS2021_00589", + "BraTS2021_00590", + "BraTS2021_00591", + "BraTS2021_00593", + "BraTS2021_00594", + "BraTS2021_00596", + "BraTS2021_00598", + "BraTS2021_00599", + "BraTS2021_00601", + "BraTS2021_00604", + "BraTS2021_00606", + "BraTS2021_00608", + "BraTS2021_00610", + "BraTS2021_00611", + "BraTS2021_00612", + "BraTS2021_00613", + "BraTS2021_00615", + "BraTS2021_00616", + "BraTS2021_00618", + "BraTS2021_00619", + "BraTS2021_00620", + "BraTS2021_00621", + "BraTS2021_00622", + "BraTS2021_00623", + "BraTS2021_00624", + "BraTS2021_00625", + "BraTS2021_00626", + "BraTS2021_00628", + "BraTS2021_00631", + "BraTS2021_00636", + "BraTS2021_00638", + "BraTS2021_00640", + "BraTS2021_00642", + "BraTS2021_00645", + "BraTS2021_00646", + "BraTS2021_00649", + 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"BraTS2021_01265", + "BraTS2021_01266", + "BraTS2021_01267", + "BraTS2021_01269", + "BraTS2021_01270", + "BraTS2021_01271", + "BraTS2021_01272", + "BraTS2021_01273", + "BraTS2021_01274", + "BraTS2021_01275", + "BraTS2021_01276", + "BraTS2021_01277", + "BraTS2021_01279", + "BraTS2021_01281", + "BraTS2021_01282", + "BraTS2021_01283", + "BraTS2021_01284", + "BraTS2021_01285", + "BraTS2021_01286", + "BraTS2021_01287", + "BraTS2021_01288", + "BraTS2021_01289", + "BraTS2021_01292", + "BraTS2021_01293", + "BraTS2021_01294", + "BraTS2021_01295", + "BraTS2021_01296", + "BraTS2021_01297", + "BraTS2021_01298", + "BraTS2021_01299", + "BraTS2021_01300", + "BraTS2021_01301", + "BraTS2021_01302", + "BraTS2021_01303", + "BraTS2021_01304", + "BraTS2021_01305", + "BraTS2021_01306", + "BraTS2021_01307", + "BraTS2021_01308", + "BraTS2021_01309", + "BraTS2021_01310", + "BraTS2021_01311", + "BraTS2021_01312", + "BraTS2021_01313", + "BraTS2021_01316", + "BraTS2021_01318", + "BraTS2021_01319", + "BraTS2021_01320", + "BraTS2021_01323", + "BraTS2021_01324", + "BraTS2021_01325", + "BraTS2021_01326", + "BraTS2021_01327", + "BraTS2021_01328", + "BraTS2021_01329", + "BraTS2021_01331", + "BraTS2021_01333", + "BraTS2021_01335", + "BraTS2021_01336", + "BraTS2021_01337", + "BraTS2021_01338", + "BraTS2021_01339", + "BraTS2021_01340", + "BraTS2021_01341", + "BraTS2021_01342", + "BraTS2021_01343", + "BraTS2021_01344", + "BraTS2021_01345", + "BraTS2021_01346", + "BraTS2021_01347", + "BraTS2021_01348", + "BraTS2021_01349", + "BraTS2021_01350", + "BraTS2021_01351", + "BraTS2021_01352", + "BraTS2021_01353", + "BraTS2021_01354", + "BraTS2021_01355", + "BraTS2021_01356", + "BraTS2021_01357", + "BraTS2021_01359", + "BraTS2021_01360", + "BraTS2021_01361", + "BraTS2021_01362", + "BraTS2021_01363", + "BraTS2021_01364", + "BraTS2021_01365", + "BraTS2021_01367", + "BraTS2021_01368", + "BraTS2021_01369", + "BraTS2021_01370", + "BraTS2021_01375", + "BraTS2021_01376", + "BraTS2021_01377", + 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"BraTS2021_01452", + "BraTS2021_01453", + "BraTS2021_01454", + "BraTS2021_01455", + "BraTS2021_01457", + "BraTS2021_01458", + "BraTS2021_01460", + "BraTS2021_01461", + "BraTS2021_01462", + "BraTS2021_01463", + "BraTS2021_01465", + "BraTS2021_01466", + "BraTS2021_01467", + "BraTS2021_01468", + "BraTS2021_01469", + "BraTS2021_01471", + "BraTS2021_01472", + "BraTS2021_01474", + "BraTS2021_01475", + "BraTS2021_01476", + "BraTS2021_01477", + "BraTS2021_01479", + "BraTS2021_01480", + "BraTS2021_01481", + "BraTS2021_01482", + "BraTS2021_01483", + "BraTS2021_01485", + "BraTS2021_01486", + "BraTS2021_01487", + "BraTS2021_01488", + "BraTS2021_01489", + "BraTS2021_01490", + "BraTS2021_01491", + "BraTS2021_01492", + "BraTS2021_01494", + "BraTS2021_01495", + "BraTS2021_01496", + "BraTS2021_01497", + "BraTS2021_01498", + "BraTS2021_01499", + "BraTS2021_01500", + "BraTS2021_01501", + "BraTS2021_01502", + "BraTS2021_01503", + "BraTS2021_01504", + "BraTS2021_01505", + "BraTS2021_01506", + "BraTS2021_01507", + "BraTS2021_01508", + "BraTS2021_01509", + "BraTS2021_01510", + "BraTS2021_01512", + "BraTS2021_01513", + "BraTS2021_01514", + "BraTS2021_01515", + "BraTS2021_01516", + "BraTS2021_01517", + "BraTS2021_01518", + "BraTS2021_01520", + "BraTS2021_01521", + "BraTS2021_01522", + "BraTS2021_01523", + "BraTS2021_01524", + "BraTS2021_01525", + "BraTS2021_01526", + "BraTS2021_01528", + "BraTS2021_01529", + "BraTS2021_01530", + "BraTS2021_01531", + "BraTS2021_01532", + "BraTS2021_01536", + "BraTS2021_01538", + "BraTS2021_01539", + "BraTS2021_01540", + "BraTS2021_01541", + "BraTS2021_01542", + "BraTS2021_01544", + "BraTS2021_01546", + "BraTS2021_01547", + "BraTS2021_01548", + "BraTS2021_01550", + "BraTS2021_01551", + "BraTS2021_01552", + "BraTS2021_01553", + "BraTS2021_01554", + "BraTS2021_01555", + "BraTS2021_01557", + "BraTS2021_01558", + "BraTS2021_01559", + "BraTS2021_01560", + "BraTS2021_01562", + "BraTS2021_01563", + "BraTS2021_01564", + "BraTS2021_01565", + "BraTS2021_01566", + "BraTS2021_01567", + "BraTS2021_01569", + "BraTS2021_01571", + "BraTS2021_01572", + "BraTS2021_01573", + "BraTS2021_01575", + "BraTS2021_01576", + "BraTS2021_01577", + "BraTS2021_01578", + "BraTS2021_01579", + "BraTS2021_01580", + "BraTS2021_01581", + "BraTS2021_01582", + "BraTS2021_01583", + "BraTS2021_01584", + "BraTS2021_01585", + "BraTS2021_01586", + "BraTS2021_01587", + "BraTS2021_01589", + "BraTS2021_01590", + "BraTS2021_01591", + "BraTS2021_01592", + "BraTS2021_01593", + "BraTS2021_01594", + "BraTS2021_01595", + "BraTS2021_01596", + "BraTS2021_01597", + "BraTS2021_01599", + "BraTS2021_01601", + "BraTS2021_01602", + "BraTS2021_01603", + "BraTS2021_01604", + "BraTS2021_01605", + "BraTS2021_01606", + "BraTS2021_01607", + "BraTS2021_01608", + "BraTS2021_01609", + "BraTS2021_01610", + "BraTS2021_01611", + "BraTS2021_01613", + "BraTS2021_01614", + "BraTS2021_01615", + "BraTS2021_01617", + "BraTS2021_01618", + "BraTS2021_01619", + "BraTS2021_01620", + "BraTS2021_01622", + "BraTS2021_01624", + "BraTS2021_01625", + "BraTS2021_01626", + "BraTS2021_01627", + "BraTS2021_01630", + "BraTS2021_01631", + "BraTS2021_01632", + "BraTS2021_01633", + "BraTS2021_01634", + "BraTS2021_01635", + "BraTS2021_01636", + "BraTS2021_01637", + "BraTS2021_01639", + "BraTS2021_01640", + "BraTS2021_01641", + "BraTS2021_01642", + "BraTS2021_01644", + "BraTS2021_01646", + "BraTS2021_01647", + "BraTS2021_01648", + "BraTS2021_01649", + "BraTS2021_01650", + "BraTS2021_01651", + "BraTS2021_01652", + "BraTS2021_01653", + "BraTS2021_01654", + "BraTS2021_01655", + "BraTS2021_01658", + "BraTS2021_01660", + "BraTS2021_01661", + "BraTS2021_01662", + "BraTS2021_01663", + "BraTS2021_01664", + "BraTS2021_01666" + ], + "val": [ + "BraTS2021_00017", + "BraTS2021_00030", + "BraTS2021_00043", + "BraTS2021_00048", + "BraTS2021_00049", + "BraTS2021_00056", + "BraTS2021_00068", + "BraTS2021_00071", + "BraTS2021_00094", + "BraTS2021_00096", + "BraTS2021_00098", + "BraTS2021_00100", + "BraTS2021_00121", + "BraTS2021_00138", + "BraTS2021_00139", + "BraTS2021_00142", + "BraTS2021_00150", + "BraTS2021_00151", + "BraTS2021_00155", + "BraTS2021_00156", + "BraTS2021_00172", + "BraTS2021_00176", + "BraTS2021_00187", + "BraTS2021_00195", + "BraTS2021_00203", + "BraTS2021_00209", + "BraTS2021_00221", + "BraTS2021_00227", + "BraTS2021_00235", + "BraTS2021_00238", + "BraTS2021_00250", + "BraTS2021_00253", + "BraTS2021_00254", + "BraTS2021_00261", + "BraTS2021_00271", + "BraTS2021_00273", + "BraTS2021_00280", + "BraTS2021_00284", + "BraTS2021_00285", + "BraTS2021_00288", + "BraTS2021_00300", + "BraTS2021_00305", + "BraTS2021_00338", + "BraTS2021_00340", + "BraTS2021_00349", + "BraTS2021_00356", + "BraTS2021_00364", + "BraTS2021_00371", + "BraTS2021_00382", + "BraTS2021_00389", + "BraTS2021_00403", + "BraTS2021_00404", + "BraTS2021_00405", + "BraTS2021_00407", + "BraTS2021_00410", + "BraTS2021_00412", + "BraTS2021_00416", + "BraTS2021_00431", + "BraTS2021_00441", + "BraTS2021_00446", + "BraTS2021_00456", + "BraTS2021_00470", + "BraTS2021_00472", + "BraTS2021_00479", + "BraTS2021_00499", + "BraTS2021_00504", + "BraTS2021_00512", + "BraTS2021_00513", + "BraTS2021_00524", + "BraTS2021_00526", + "BraTS2021_00530", + "BraTS2021_00538", + "BraTS2021_00539", + "BraTS2021_00540", + "BraTS2021_00542", + "BraTS2021_00550", + "BraTS2021_00551", + "BraTS2021_00584", + "BraTS2021_00588", + "BraTS2021_00589", + "BraTS2021_00613", + "BraTS2021_00620", + "BraTS2021_00625", + "BraTS2021_00626", + "BraTS2021_00638", + "BraTS2021_00649", + "BraTS2021_00651", + "BraTS2021_00659", + "BraTS2021_00674", + "BraTS2021_00676", + "BraTS2021_00680", + "BraTS2021_00683", + "BraTS2021_00685", + "BraTS2021_00687", + "BraTS2021_00689", + "BraTS2021_00697", + "BraTS2021_00706", + "BraTS2021_00723", + "BraTS2021_00728", + "BraTS2021_00729", + "BraTS2021_00737", + "BraTS2021_00742", + "BraTS2021_00747", + "BraTS2021_00756", + "BraTS2021_00764", + "BraTS2021_00767", + "BraTS2021_00774", + "BraTS2021_00797", + "BraTS2021_00799", + "BraTS2021_00801", + "BraTS2021_00802", + "BraTS2021_00804", + "BraTS2021_00807", + "BraTS2021_00816", + "BraTS2021_00828", + "BraTS2021_01007", + "BraTS2021_01012", + "BraTS2021_01014", + "BraTS2021_01015", + "BraTS2021_01017", + "BraTS2021_01022", + "BraTS2021_01025", + "BraTS2021_01044", + "BraTS2021_01049", + "BraTS2021_01057", + "BraTS2021_01062", + "BraTS2021_01064", + "BraTS2021_01071", + "BraTS2021_01074", + "BraTS2021_01075", + "BraTS2021_01078", + "BraTS2021_01080", + "BraTS2021_01082", + "BraTS2021_01083", + "BraTS2021_01091", + "BraTS2021_01093", + "BraTS2021_01103", + "BraTS2021_01105", + "BraTS2021_01108", + "BraTS2021_01113", + "BraTS2021_01116", + "BraTS2021_01121", + "BraTS2021_01122", + "BraTS2021_01126", + "BraTS2021_01127", + "BraTS2021_01131", + "BraTS2021_01134", + "BraTS2021_01138", + "BraTS2021_01149", + "BraTS2021_01150", + "BraTS2021_01154", + "BraTS2021_01156", + "BraTS2021_01177", + "BraTS2021_01182", + "BraTS2021_01192", + "BraTS2021_01201", + "BraTS2021_01202", + "BraTS2021_01203", + "BraTS2021_01222", + "BraTS2021_01226", + "BraTS2021_01230", + "BraTS2021_01236", + "BraTS2021_01242", + "BraTS2021_01253", + "BraTS2021_01256", + "BraTS2021_01268", + "BraTS2021_01278", + "BraTS2021_01280", + "BraTS2021_01290", + "BraTS2021_01291", + "BraTS2021_01314", + "BraTS2021_01315", + "BraTS2021_01317", + "BraTS2021_01321", + "BraTS2021_01322", + "BraTS2021_01330", + "BraTS2021_01332", + "BraTS2021_01334", + "BraTS2021_01358", + "BraTS2021_01366", + "BraTS2021_01371", + "BraTS2021_01372", + "BraTS2021_01373", + "BraTS2021_01374", + "BraTS2021_01378", + "BraTS2021_01379", + "BraTS2021_01380", + "BraTS2021_01383", + "BraTS2021_01384", + "BraTS2021_01385", + "BraTS2021_01395", + "BraTS2021_01396", + "BraTS2021_01403", + "BraTS2021_01405", + "BraTS2021_01406", + "BraTS2021_01407", + "BraTS2021_01409", + "BraTS2021_01413", + "BraTS2021_01414", + "BraTS2021_01415", + "BraTS2021_01416", + "BraTS2021_01417", + "BraTS2021_01418", + "BraTS2021_01419", + "BraTS2021_01420", + "BraTS2021_01431", + "BraTS2021_01436", + "BraTS2021_01441", + "BraTS2021_01444", + "BraTS2021_01448", + "BraTS2021_01449", + "BraTS2021_01456", + "BraTS2021_01459", + "BraTS2021_01464", + "BraTS2021_01470", + "BraTS2021_01473", + "BraTS2021_01478", + "BraTS2021_01484", + "BraTS2021_01493", + "BraTS2021_01511", + "BraTS2021_01519", + "BraTS2021_01527", + "BraTS2021_01533", + "BraTS2021_01534", + "BraTS2021_01535", + "BraTS2021_01537", + "BraTS2021_01543", + "BraTS2021_01545", + "BraTS2021_01549", + "BraTS2021_01556", + "BraTS2021_01561", + "BraTS2021_01568", + "BraTS2021_01570", + "BraTS2021_01574", + "BraTS2021_01588", + "BraTS2021_01598", + "BraTS2021_01600", + "BraTS2021_01612", + "BraTS2021_01616", + "BraTS2021_01621", + "BraTS2021_01623", + "BraTS2021_01628", + "BraTS2021_01629", + "BraTS2021_01638", + "BraTS2021_01643", + "BraTS2021_01645", + "BraTS2021_01656", + 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"hepaticvessel_446", + "hepaticvessel_447", + "hepaticvessel_453", + "hepaticvessel_454", + "hepaticvessel_455", + "hepaticvessel_456", + "hepaticvessel_458" + ], + "val": [ + "hepaticvessel_002", + "hepaticvessel_004", + "hepaticvessel_007", + "hepaticvessel_022", + "hepaticvessel_039", + "hepaticvessel_040", + "hepaticvessel_042", + "hepaticvessel_046", + "hepaticvessel_051", + "hepaticvessel_068", + "hepaticvessel_078", + "hepaticvessel_081", + "hepaticvessel_086", + "hepaticvessel_091", + "hepaticvessel_097", + "hepaticvessel_116", + "hepaticvessel_117", + "hepaticvessel_125", + "hepaticvessel_128", + "hepaticvessel_137", + "hepaticvessel_138", + "hepaticvessel_139", + "hepaticvessel_140", + "hepaticvessel_141", + "hepaticvessel_144", + "hepaticvessel_151", + "hepaticvessel_160", + "hepaticvessel_172", + "hepaticvessel_178", + "hepaticvessel_184", + "hepaticvessel_193", + "hepaticvessel_197", + "hepaticvessel_201", + "hepaticvessel_203", + "hepaticvessel_209", + "hepaticvessel_214", + "hepaticvessel_229", + "hepaticvessel_233", + "hepaticvessel_236", + "hepaticvessel_238", + "hepaticvessel_263", + "hepaticvessel_265", + "hepaticvessel_268", + "hepaticvessel_280", + "hepaticvessel_286", + "hepaticvessel_289", + "hepaticvessel_307", + "hepaticvessel_318", + "hepaticvessel_322", + "hepaticvessel_338", + "hepaticvessel_353", + "hepaticvessel_367", + "hepaticvessel_382", + "hepaticvessel_385", + "hepaticvessel_398", + "hepaticvessel_419", + "hepaticvessel_420", + "hepaticvessel_423", + "hepaticvessel_431", + "hepaticvessel_433", + "hepaticvessel_442" + ] + }, + "3": { + "train": [ + "hepaticvessel_002", + "hepaticvessel_004", + "hepaticvessel_007", + "hepaticvessel_008", + "hepaticvessel_016", + "hepaticvessel_018", + "hepaticvessel_019", + "hepaticvessel_020", + "hepaticvessel_022", + "hepaticvessel_023", + "hepaticvessel_025", + "hepaticvessel_026", + "hepaticvessel_027", + "hepaticvessel_028", + "hepaticvessel_029", + "hepaticvessel_030", + "hepaticvessel_032", + "hepaticvessel_033", + "hepaticvessel_039", + "hepaticvessel_040", + "hepaticvessel_042", + "hepaticvessel_044", + "hepaticvessel_046", + "hepaticvessel_049", + "hepaticvessel_050", + "hepaticvessel_051", + "hepaticvessel_053", + "hepaticvessel_057", + "hepaticvessel_058", + "hepaticvessel_059", + "hepaticvessel_062", + "hepaticvessel_065", + "hepaticvessel_066", + "hepaticvessel_067", + "hepaticvessel_068", + "hepaticvessel_070", + "hepaticvessel_071", + "hepaticvessel_075", + "hepaticvessel_077", + "hepaticvessel_078", + "hepaticvessel_079", + "hepaticvessel_080", + "hepaticvessel_081", + "hepaticvessel_082", + "hepaticvessel_083", + "hepaticvessel_084", + "hepaticvessel_085", + "hepaticvessel_086", + "hepaticvessel_087", + "hepaticvessel_088", + "hepaticvessel_089", + "hepaticvessel_091", + "hepaticvessel_092", + "hepaticvessel_094", + "hepaticvessel_097", + "hepaticvessel_098", + "hepaticvessel_100", + "hepaticvessel_103", + "hepaticvessel_104", + "hepaticvessel_108", + "hepaticvessel_110", + "hepaticvessel_111", + "hepaticvessel_112", + "hepaticvessel_113", + "hepaticvessel_115", + "hepaticvessel_116", + "hepaticvessel_117", + "hepaticvessel_119", + "hepaticvessel_121", + "hepaticvessel_123", + "hepaticvessel_124", + "hepaticvessel_125", + "hepaticvessel_127", + "hepaticvessel_128", + "hepaticvessel_129", + "hepaticvessel_131", + "hepaticvessel_132", + "hepaticvessel_136", + "hepaticvessel_137", + "hepaticvessel_138", + "hepaticvessel_139", + "hepaticvessel_140", + "hepaticvessel_141", + "hepaticvessel_142", + "hepaticvessel_144", + "hepaticvessel_145", + "hepaticvessel_146", + "hepaticvessel_147", + "hepaticvessel_150", + "hepaticvessel_151", + "hepaticvessel_154", + "hepaticvessel_157", + "hepaticvessel_158", + "hepaticvessel_159", + "hepaticvessel_160", + "hepaticvessel_161", + "hepaticvessel_164", + "hepaticvessel_165", + "hepaticvessel_167", + "hepaticvessel_172", + "hepaticvessel_173", + "hepaticvessel_174", + "hepaticvessel_175", + "hepaticvessel_178", + "hepaticvessel_181", + "hepaticvessel_184", + "hepaticvessel_185", + "hepaticvessel_186", + "hepaticvessel_189", + "hepaticvessel_192", + "hepaticvessel_193", + "hepaticvessel_194", + "hepaticvessel_195", + "hepaticvessel_196", + "hepaticvessel_197", + "hepaticvessel_200", + "hepaticvessel_201", + "hepaticvessel_203", + "hepaticvessel_206", + "hepaticvessel_207", + "hepaticvessel_208", + "hepaticvessel_209", + "hepaticvessel_210", + "hepaticvessel_211", + "hepaticvessel_213", + "hepaticvessel_214", + "hepaticvessel_217", + "hepaticvessel_218", + "hepaticvessel_219", + "hepaticvessel_223", + "hepaticvessel_224", + "hepaticvessel_225", + "hepaticvessel_229", + "hepaticvessel_230", + "hepaticvessel_231", + "hepaticvessel_233", + "hepaticvessel_234", + "hepaticvessel_235", + "hepaticvessel_236", + "hepaticvessel_237", + "hepaticvessel_238", + "hepaticvessel_240", + "hepaticvessel_242", + "hepaticvessel_244", + "hepaticvessel_248", + "hepaticvessel_255", + "hepaticvessel_256", + "hepaticvessel_258", + "hepaticvessel_262", + "hepaticvessel_263", + "hepaticvessel_265", + "hepaticvessel_266", + "hepaticvessel_268", + "hepaticvessel_269", + "hepaticvessel_270", + "hepaticvessel_271", + "hepaticvessel_272", + "hepaticvessel_274", + "hepaticvessel_275", + "hepaticvessel_278", + "hepaticvessel_280", + "hepaticvessel_282", + "hepaticvessel_285", + "hepaticvessel_286", + "hepaticvessel_287", + "hepaticvessel_289", + "hepaticvessel_293", + "hepaticvessel_297", + "hepaticvessel_299", + "hepaticvessel_303", + "hepaticvessel_305", + "hepaticvessel_307", + "hepaticvessel_308", + "hepaticvessel_309", + "hepaticvessel_318", + "hepaticvessel_321", + "hepaticvessel_322", + "hepaticvessel_324", + "hepaticvessel_329", + "hepaticvessel_330", + "hepaticvessel_332", + "hepaticvessel_333", + "hepaticvessel_335", + "hepaticvessel_338", + "hepaticvessel_340", + "hepaticvessel_341", + "hepaticvessel_344", + "hepaticvessel_345", + "hepaticvessel_348", + "hepaticvessel_349", + "hepaticvessel_350", + "hepaticvessel_353", + "hepaticvessel_356", + "hepaticvessel_358", + "hepaticvessel_359", + "hepaticvessel_361", + "hepaticvessel_362", + "hepaticvessel_363", + "hepaticvessel_367", + "hepaticvessel_368", + "hepaticvessel_372", + "hepaticvessel_373", + "hepaticvessel_375", + "hepaticvessel_378", + "hepaticvessel_379", + "hepaticvessel_382", + "hepaticvessel_383", + "hepaticvessel_384", + "hepaticvessel_385", + "hepaticvessel_386", + "hepaticvessel_388", + "hepaticvessel_389", + "hepaticvessel_391", + "hepaticvessel_393", + "hepaticvessel_396", + "hepaticvessel_397", + "hepaticvessel_398", + "hepaticvessel_402", + "hepaticvessel_404", + "hepaticvessel_406", + "hepaticvessel_407", + "hepaticvessel_408", + "hepaticvessel_409", + "hepaticvessel_419", + "hepaticvessel_420", + "hepaticvessel_422", + "hepaticvessel_423", + "hepaticvessel_424", + "hepaticvessel_425", + "hepaticvessel_431", + "hepaticvessel_432", + "hepaticvessel_433", + "hepaticvessel_437", + "hepaticvessel_440", + "hepaticvessel_441", + "hepaticvessel_442", + "hepaticvessel_443", + "hepaticvessel_444", + "hepaticvessel_445", + "hepaticvessel_454", + "hepaticvessel_455", + "hepaticvessel_456", + "hepaticvessel_458" + ], + "val": [ + "hepaticvessel_001", + "hepaticvessel_005", + "hepaticvessel_010", + "hepaticvessel_011", + "hepaticvessel_013", + "hepaticvessel_031", + "hepaticvessel_052", + "hepaticvessel_061", + "hepaticvessel_072", + "hepaticvessel_090", + "hepaticvessel_093", + "hepaticvessel_096", + "hepaticvessel_102", + "hepaticvessel_133", + "hepaticvessel_148", + "hepaticvessel_163", + "hepaticvessel_166", + "hepaticvessel_171", + "hepaticvessel_177", + "hepaticvessel_179", + "hepaticvessel_183", + "hepaticvessel_198", + "hepaticvessel_199", + "hepaticvessel_215", + "hepaticvessel_221", + "hepaticvessel_222", + "hepaticvessel_227", + "hepaticvessel_245", + "hepaticvessel_246", + "hepaticvessel_259", + "hepaticvessel_279", + "hepaticvessel_281", + "hepaticvessel_284", + "hepaticvessel_290", + "hepaticvessel_291", + "hepaticvessel_294", + "hepaticvessel_296", + "hepaticvessel_300", + "hepaticvessel_314", + "hepaticvessel_319", + "hepaticvessel_320", + "hepaticvessel_323", + "hepaticvessel_325", + "hepaticvessel_327", + "hepaticvessel_336", + "hepaticvessel_369", + "hepaticvessel_371", + "hepaticvessel_374", + "hepaticvessel_400", + "hepaticvessel_401", + "hepaticvessel_411", + "hepaticvessel_412", + "hepaticvessel_416", + "hepaticvessel_427", + "hepaticvessel_429", + "hepaticvessel_434", + "hepaticvessel_438", + "hepaticvessel_446", + "hepaticvessel_447", + "hepaticvessel_453" + ] + }, + "4": { + "train": [ + "hepaticvessel_001", + "hepaticvessel_002", + "hepaticvessel_004", + "hepaticvessel_005", + "hepaticvessel_007", + "hepaticvessel_010", + "hepaticvessel_011", + "hepaticvessel_013", + "hepaticvessel_016", + "hepaticvessel_018", + "hepaticvessel_019", + "hepaticvessel_022", + "hepaticvessel_023", + "hepaticvessel_025", + "hepaticvessel_026", + "hepaticvessel_027", + "hepaticvessel_028", + "hepaticvessel_029", + "hepaticvessel_030", + "hepaticvessel_031", + "hepaticvessel_039", + "hepaticvessel_040", + "hepaticvessel_042", + "hepaticvessel_044", + "hepaticvessel_046", + "hepaticvessel_050", + "hepaticvessel_051", + "hepaticvessel_052", + "hepaticvessel_053", + "hepaticvessel_058", + "hepaticvessel_061", + "hepaticvessel_062", + "hepaticvessel_065", + "hepaticvessel_066", + "hepaticvessel_068", + "hepaticvessel_071", + "hepaticvessel_072", + "hepaticvessel_077", + "hepaticvessel_078", + "hepaticvessel_079", + "hepaticvessel_080", + "hepaticvessel_081", + "hepaticvessel_082", + "hepaticvessel_083", + "hepaticvessel_084", + "hepaticvessel_085", + "hepaticvessel_086", + "hepaticvessel_087", + "hepaticvessel_090", + "hepaticvessel_091", + "hepaticvessel_093", + "hepaticvessel_096", + "hepaticvessel_097", + "hepaticvessel_098", + "hepaticvessel_100", + "hepaticvessel_102", + "hepaticvessel_103", + "hepaticvessel_104", + "hepaticvessel_110", + "hepaticvessel_112", + "hepaticvessel_116", + "hepaticvessel_117", + "hepaticvessel_125", + "hepaticvessel_127", + "hepaticvessel_128", + "hepaticvessel_129", + "hepaticvessel_131", + "hepaticvessel_132", + "hepaticvessel_133", + "hepaticvessel_137", + "hepaticvessel_138", + "hepaticvessel_139", + "hepaticvessel_140", + "hepaticvessel_141", + "hepaticvessel_142", + "hepaticvessel_144", + "hepaticvessel_145", + "hepaticvessel_146", + "hepaticvessel_147", + "hepaticvessel_148", + "hepaticvessel_150", + "hepaticvessel_151", + "hepaticvessel_157", + "hepaticvessel_160", + "hepaticvessel_161", + "hepaticvessel_163", + "hepaticvessel_164", + "hepaticvessel_165", + "hepaticvessel_166", + "hepaticvessel_167", + "hepaticvessel_171", + "hepaticvessel_172", + "hepaticvessel_175", + "hepaticvessel_177", + "hepaticvessel_178", + "hepaticvessel_179", + "hepaticvessel_183", + "hepaticvessel_184", + "hepaticvessel_185", + "hepaticvessel_186", + "hepaticvessel_192", + "hepaticvessel_193", + "hepaticvessel_194", + "hepaticvessel_196", + "hepaticvessel_197", + "hepaticvessel_198", + "hepaticvessel_199", + "hepaticvessel_201", + "hepaticvessel_203", + "hepaticvessel_206", + "hepaticvessel_209", + "hepaticvessel_210", + "hepaticvessel_213", + "hepaticvessel_214", + "hepaticvessel_215", + "hepaticvessel_217", + "hepaticvessel_218", + "hepaticvessel_219", + "hepaticvessel_221", + "hepaticvessel_222", + "hepaticvessel_224", + "hepaticvessel_225", + "hepaticvessel_227", + "hepaticvessel_229", + "hepaticvessel_230", + "hepaticvessel_231", + "hepaticvessel_233", + "hepaticvessel_234", + "hepaticvessel_235", + "hepaticvessel_236", + "hepaticvessel_238", + "hepaticvessel_240", + "hepaticvessel_242", + "hepaticvessel_244", + "hepaticvessel_245", + "hepaticvessel_246", + "hepaticvessel_248", + "hepaticvessel_255", + "hepaticvessel_256", + "hepaticvessel_258", + "hepaticvessel_259", + "hepaticvessel_263", + "hepaticvessel_265", + "hepaticvessel_266", + "hepaticvessel_268", + "hepaticvessel_269", + "hepaticvessel_270", + "hepaticvessel_272", + "hepaticvessel_274", + "hepaticvessel_275", + "hepaticvessel_279", + "hepaticvessel_280", + "hepaticvessel_281", + "hepaticvessel_282", + "hepaticvessel_284", + "hepaticvessel_285", + "hepaticvessel_286", + "hepaticvessel_287", + "hepaticvessel_289", + "hepaticvessel_290", + "hepaticvessel_291", + "hepaticvessel_294", + "hepaticvessel_296", + "hepaticvessel_297", + "hepaticvessel_299", + "hepaticvessel_300", + "hepaticvessel_303", + "hepaticvessel_307", + "hepaticvessel_309", + "hepaticvessel_314", + "hepaticvessel_318", + "hepaticvessel_319", + "hepaticvessel_320", + "hepaticvessel_321", + "hepaticvessel_322", + "hepaticvessel_323", + "hepaticvessel_324", + "hepaticvessel_325", + "hepaticvessel_327", + "hepaticvessel_329", + "hepaticvessel_330", + "hepaticvessel_332", + "hepaticvessel_333", + "hepaticvessel_336", + "hepaticvessel_338", + "hepaticvessel_340", + "hepaticvessel_341", + "hepaticvessel_345", + "hepaticvessel_348", + "hepaticvessel_349", + "hepaticvessel_353", + "hepaticvessel_356", + "hepaticvessel_358", + "hepaticvessel_359", + "hepaticvessel_361", + "hepaticvessel_362", + "hepaticvessel_363", + "hepaticvessel_367", + "hepaticvessel_368", + "hepaticvessel_369", + "hepaticvessel_371", + "hepaticvessel_374", + "hepaticvessel_375", + "hepaticvessel_382", + "hepaticvessel_383", + "hepaticvessel_384", + "hepaticvessel_385", + "hepaticvessel_388", + "hepaticvessel_389", + "hepaticvessel_391", + "hepaticvessel_398", + "hepaticvessel_400", + "hepaticvessel_401", + "hepaticvessel_406", + "hepaticvessel_407", + "hepaticvessel_408", + "hepaticvessel_409", + "hepaticvessel_411", + "hepaticvessel_412", + "hepaticvessel_416", + "hepaticvessel_419", + "hepaticvessel_420", + "hepaticvessel_422", + "hepaticvessel_423", + "hepaticvessel_424", + "hepaticvessel_427", + "hepaticvessel_429", + "hepaticvessel_431", + "hepaticvessel_433", + "hepaticvessel_434", + "hepaticvessel_437", + "hepaticvessel_438", + "hepaticvessel_440", + "hepaticvessel_441", + "hepaticvessel_442", + "hepaticvessel_443", + "hepaticvessel_444", + "hepaticvessel_445", + "hepaticvessel_446", + "hepaticvessel_447", + "hepaticvessel_453", + "hepaticvessel_456", + "hepaticvessel_458" + ], + "val": [ + "hepaticvessel_008", + "hepaticvessel_020", + "hepaticvessel_032", + "hepaticvessel_033", + "hepaticvessel_049", + "hepaticvessel_057", + "hepaticvessel_059", + "hepaticvessel_067", + "hepaticvessel_070", + "hepaticvessel_075", + "hepaticvessel_088", + "hepaticvessel_089", + "hepaticvessel_092", + "hepaticvessel_094", + "hepaticvessel_108", + "hepaticvessel_111", + "hepaticvessel_113", + "hepaticvessel_115", + "hepaticvessel_119", + "hepaticvessel_121", + "hepaticvessel_123", + "hepaticvessel_124", + "hepaticvessel_136", + "hepaticvessel_154", + "hepaticvessel_158", + "hepaticvessel_159", + "hepaticvessel_173", + "hepaticvessel_174", + "hepaticvessel_181", + "hepaticvessel_189", + "hepaticvessel_195", + "hepaticvessel_200", + "hepaticvessel_207", + "hepaticvessel_208", + "hepaticvessel_211", + "hepaticvessel_223", + "hepaticvessel_237", + "hepaticvessel_262", + "hepaticvessel_271", + "hepaticvessel_278", + "hepaticvessel_293", + "hepaticvessel_305", + "hepaticvessel_308", + "hepaticvessel_335", + "hepaticvessel_344", + "hepaticvessel_350", + "hepaticvessel_372", + "hepaticvessel_373", + "hepaticvessel_378", + "hepaticvessel_379", + "hepaticvessel_386", + "hepaticvessel_393", + "hepaticvessel_396", + "hepaticvessel_397", + "hepaticvessel_402", + "hepaticvessel_404", + "hepaticvessel_425", + "hepaticvessel_432", + "hepaticvessel_454", + "hepaticvessel_455" + ] + } +} \ No newline at end of file From ac6fc1abc8ad486e94a5f54ad56bfae63b8a6449 Mon Sep 17 00:00:00 2001 From: qic999 Date: Wed, 10 Sep 2025 11:05:51 -0400 Subject: [PATCH 2/3] update --- README.md | 33 +- measure_dice.py | 15 +- scripts/eval.sh | 13 + split/brats_folds.json | 3781 ---------------------------------- split/brats_splits_final.pkl | Bin 0 -> 375880 bytes split/hv_folds.json | 1547 -------------- split/hv_splits_final.pkl | Bin 0 -> 103630 bytes 7 files changed, 59 insertions(+), 5330 deletions(-) create mode 100644 scripts/eval.sh delete mode 100644 split/brats_folds.json create mode 100755 split/brats_splits_final.pkl delete mode 100644 split/hv_folds.json create mode 100755 split/hv_splits_final.pkl diff --git a/README.md b/README.md index 9d8c0fc..ad9642b 100644 --- a/README.md +++ b/README.md @@ -25,10 +25,41 @@ See scripts/install.sh for installation. See [nnUNet](https://github.com/MIC-DKF See scripts/train.sh -### Inference & Eval +### Inference & Test See scripts/inference.sh +### 5 fold Eval + +See scripts/eval.sh + +We provide 5-fold model checkpoints for the Brats and HepaticVessel datasets. These models can be directly downloaded from Hugging Face. +``` +huggingface-cli download qicq1c/3D-TransUNet --local-dir . +``` + +5-fold results for the Brats dataset + +| Fold | ncr | ed | et | Avg | +|------|----------|----------|----------|----------| +| 1 | 0.9348 | 0.9130 | 0.8590 | 0.9023 | +| 2 | 0.9327 | 0.9068 | 0.8639 | 0.9011 | +| 3 | 0.9389 | 0.9245 | 0.8752 | 0.9129 | +| 4 | 0.9394 | 0.9254 | 0.8773 | 0.9140 | +| 5 | 0.9418 | 0.9141 | 0.8560 | 0.9040 | +| **Avg** | **0.9371** | **0.9168** | **0.8663** | **0.9061** | + +5-fold results for the Brats dataset + +| Fold | Vessel | Tumour | Avg | +|------|----------|----------|----------| +| 1 | 0.6691 | 0.7153 | 0.6922 | +| 2 | 0.6393 | 0.6899 | 0.6646 | +| 3 | 0.6215 | 0.7276 | 0.6745 | +| 4 | 0.6684 | 0.6735 | 0.6710 | +| 5 | 0.6110 | 0.6745 | 0.6428 | +| **Avg** | **0.6428** | **0.6966** | **0.6690** | + ## Acknowledgements diff --git a/measure_dice.py b/measure_dice.py index 1c9e6b6..2775cd7 100644 --- a/measure_dice.py +++ b/measure_dice.py @@ -6,6 +6,8 @@ from medpy import metric from tqdm import tqdm +import pickle +import json parser = argparse.ArgumentParser() parser.add_argument('--config', default='', type=str, metavar='FILE', help='YAML config file specifying default arguments') @@ -100,8 +102,19 @@ def each_cases_metric(gt, pred, voxel_spacing): pred_dirs = pred_dir.split(",") print(f'Fusing pred from: {pred_dirs}') + +if "brats" in task.lower(): + with open("split/brats_splits_final.pkl", "rb") as f: + data = pickle.load(f) +elif "hepaticvessel" in task.lower(): + with open("split/hv_splits_final.pkl", "rb") as f: + data = pickle.load(f) + +eval_files = data[int(args.fold)]['val'] +eval_files = [i+'.nii.gz' for i in eval_files] + r_ind = 0 -for ind, case in enumerate(tqdm(os.listdir(pred_dir if pred_dirs is None else pred_dirs[0]))): +for ind, case in enumerate(tqdm(eval_files)): if not case.endswith(".nii.gz"): continue gt_path = label_dir+case.replace("_pred", "") diff --git a/scripts/eval.sh b/scripts/eval.sh new file mode 100644 index 0000000..b12ad78 --- /dev/null +++ b/scripts/eval.sh @@ -0,0 +1,13 @@ +export nnUNet_codebase="../" +export nnUNet_raw_data_base="/data1/data/nnUNet_raw_data_base/" +export nnUNet_preprocessed="/data1/data/nnUNet_raw_data_base/nnUNet_preprocessed" +export RESULTS_FOLDER="/your_dir" + +CONFIG="configs/GeTU500Region_128128128_max2former_ms-432_decl3_d192_mds_mw1.0_disds_bs2x8_adamw_warmup10_lr3e-4_masklossv1_masking_hungarian20_mhsa32_epo250.yaml" + +python3 measure_dice.py --config=$CONFIG --pred_dir pred_dir/brats/fold0/ --num_classes 4 --fold 0 +python3 measure_dice.py --config=$CONFIG --pred_dir pred_dir/brats/fold1/ --num_classes 4 --fold 1 +python3 measure_dice.py --config=$CONFIG --pred_dir pred_dir/brats/fold2/ --num_classes 4 --fold 2 +python3 measure_dice.py --config=$CONFIG --pred_dir pred_dir/brats/fold3/ --num_classes 4 --fold 3 +python3 measure_dice.py --config=$CONFIG --pred_dir pred_dir/brats/fold4/ --num_classes 4 --fold 4 + diff --git a/split/brats_folds.json b/split/brats_folds.json deleted file mode 100644 index 02fb0b3..0000000 --- a/split/brats_folds.json +++ /dev/null @@ -1,3781 +0,0 @@ -{ - "0": { - "train": [ - "BraTS2021_00002", - "BraTS2021_00003", - "BraTS2021_00005", - "BraTS2021_00006", - "BraTS2021_00008", - "BraTS2021_00011", - "BraTS2021_00012", - "BraTS2021_00014", - "BraTS2021_00017", - "BraTS2021_00018", - "BraTS2021_00019", - "BraTS2021_00020", - "BraTS2021_00021", - "BraTS2021_00022", - "BraTS2021_00025", - "BraTS2021_00026", - "BraTS2021_00030", - "BraTS2021_00032", - "BraTS2021_00033", - "BraTS2021_00036", - "BraTS2021_00043", - "BraTS2021_00044", - "BraTS2021_00048", - "BraTS2021_00049", - "BraTS2021_00052", - "BraTS2021_00053", - "BraTS2021_00054", - "BraTS2021_00056", - "BraTS2021_00058", - "BraTS2021_00059", - "BraTS2021_00060", - "BraTS2021_00061", - "BraTS2021_00062", - "BraTS2021_00063", - "BraTS2021_00064", - "BraTS2021_00066", - "BraTS2021_00068", - "BraTS2021_00071", - "BraTS2021_00072", - "BraTS2021_00074", - "BraTS2021_00077", - "BraTS2021_00081", - "BraTS2021_00084", - "BraTS2021_00090", - "BraTS2021_00094", - "BraTS2021_00095", - "BraTS2021_00096", - "BraTS2021_00097", - "BraTS2021_00098", - "BraTS2021_00100", - "BraTS2021_00101", - "BraTS2021_00103", - "BraTS2021_00105", - "BraTS2021_00108", - "BraTS2021_00109", - "BraTS2021_00111", - "BraTS2021_00112", - "BraTS2021_00113", - "BraTS2021_00115", - "BraTS2021_00116", - "BraTS2021_00118", - "BraTS2021_00120", - "BraTS2021_00121", - "BraTS2021_00122", - "BraTS2021_00124", - "BraTS2021_00128", - "BraTS2021_00131", - "BraTS2021_00132", - "BraTS2021_00133", - "BraTS2021_00134", - "BraTS2021_00138", - "BraTS2021_00139", - "BraTS2021_00142", - "BraTS2021_00143", - "BraTS2021_00146", - "BraTS2021_00147", - "BraTS2021_00148", - "BraTS2021_00149", - "BraTS2021_00150", - "BraTS2021_00151", - "BraTS2021_00154", - "BraTS2021_00155", - "BraTS2021_00156", - "BraTS2021_00157", - "BraTS2021_00158", - "BraTS2021_00159", - "BraTS2021_00162", - "BraTS2021_00165", - "BraTS2021_00166", - "BraTS2021_00167", - "BraTS2021_00170", - "BraTS2021_00171", - "BraTS2021_00172", - "BraTS2021_00176", - "BraTS2021_00177", - "BraTS2021_00178", - "BraTS2021_00183", - "BraTS2021_00184", - "BraTS2021_00186", - "BraTS2021_00187", - "BraTS2021_00188", - "BraTS2021_00191", - "BraTS2021_00193", - "BraTS2021_00195", - "BraTS2021_00196", - "BraTS2021_00199", - "BraTS2021_00201", - "BraTS2021_00203", - "BraTS2021_00204", - "BraTS2021_00206", - "BraTS2021_00207", - "BraTS2021_00209", - "BraTS2021_00210", - "BraTS2021_00216", - "BraTS2021_00219", - "BraTS2021_00220", - "BraTS2021_00221", - "BraTS2021_00222", - "BraTS2021_00227", - "BraTS2021_00228", - "BraTS2021_00230", - "BraTS2021_00233", - "BraTS2021_00234", - "BraTS2021_00235", - "BraTS2021_00236", - "BraTS2021_00237", - "BraTS2021_00238", - "BraTS2021_00239", - "BraTS2021_00240", - "BraTS2021_00241", - "BraTS2021_00242", - "BraTS2021_00246", - "BraTS2021_00247", - "BraTS2021_00249", - "BraTS2021_00250", - "BraTS2021_00253", - "BraTS2021_00254", - "BraTS2021_00258", - "BraTS2021_00259", - "BraTS2021_00260", - "BraTS2021_00261", - "BraTS2021_00262", - "BraTS2021_00263", - "BraTS2021_00267", - "BraTS2021_00269", - "BraTS2021_00271", - "BraTS2021_00273", - "BraTS2021_00275", - "BraTS2021_00280", - "BraTS2021_00281", - "BraTS2021_00282", - "BraTS2021_00284", - "BraTS2021_00285", - "BraTS2021_00288", - "BraTS2021_00289", - "BraTS2021_00290", - "BraTS2021_00291", - "BraTS2021_00293", - "BraTS2021_00296", - "BraTS2021_00297", - "BraTS2021_00298", - "BraTS2021_00299", - "BraTS2021_00300", - "BraTS2021_00301", - "BraTS2021_00303", - "BraTS2021_00305", - "BraTS2021_00306", - "BraTS2021_00309", - "BraTS2021_00310", - "BraTS2021_00312", - "BraTS2021_00314", - "BraTS2021_00316", - "BraTS2021_00317", - "BraTS2021_00318", - "BraTS2021_00320", - "BraTS2021_00321", - "BraTS2021_00322", - "BraTS2021_00324", - "BraTS2021_00325", - "BraTS2021_00327", - "BraTS2021_00328", - "BraTS2021_00329", - "BraTS2021_00331", - "BraTS2021_00332", - "BraTS2021_00338", - "BraTS2021_00339", - "BraTS2021_00340", - "BraTS2021_00341", - "BraTS2021_00343", - "BraTS2021_00344", - "BraTS2021_00346", - "BraTS2021_00347", - "BraTS2021_00348", - "BraTS2021_00349", - "BraTS2021_00351", - "BraTS2021_00352", - "BraTS2021_00356", - "BraTS2021_00359", - "BraTS2021_00360", - "BraTS2021_00364", - "BraTS2021_00367", - "BraTS2021_00369", - "BraTS2021_00370", - "BraTS2021_00371", - "BraTS2021_00373", - "BraTS2021_00377", - "BraTS2021_00378", - "BraTS2021_00380", - "BraTS2021_00382", - "BraTS2021_00383", - "BraTS2021_00386", - "BraTS2021_00387", - "BraTS2021_00388", - "BraTS2021_00389", - "BraTS2021_00390", - "BraTS2021_00392", - "BraTS2021_00395", - "BraTS2021_00397", - "BraTS2021_00400", - "BraTS2021_00401", - "BraTS2021_00403", - "BraTS2021_00404", - "BraTS2021_00405", - "BraTS2021_00406", - "BraTS2021_00407", - "BraTS2021_00409", - "BraTS2021_00410", - "BraTS2021_00412", - "BraTS2021_00413", - "BraTS2021_00414", - "BraTS2021_00416", - "BraTS2021_00417", - "BraTS2021_00418", - "BraTS2021_00421", - "BraTS2021_00425", - "BraTS2021_00429", - "BraTS2021_00431", - "BraTS2021_00432", - "BraTS2021_00440", - "BraTS2021_00441", - "BraTS2021_00443", - "BraTS2021_00444", - "BraTS2021_00445", - "BraTS2021_00446", - "BraTS2021_00448", - "BraTS2021_00449", - "BraTS2021_00451", - "BraTS2021_00452", - "BraTS2021_00453", - "BraTS2021_00454", - "BraTS2021_00455", - "BraTS2021_00456", - "BraTS2021_00457", - "BraTS2021_00459", - "BraTS2021_00466", - "BraTS2021_00468", - "BraTS2021_00469", - "BraTS2021_00470", - "BraTS2021_00472", - "BraTS2021_00477", - "BraTS2021_00478", - "BraTS2021_00479", - "BraTS2021_00481", - "BraTS2021_00483", - "BraTS2021_00488", - "BraTS2021_00491", - "BraTS2021_00493", - "BraTS2021_00494", - "BraTS2021_00496", - "BraTS2021_00498", - "BraTS2021_00499", - "BraTS2021_00501", - "BraTS2021_00502", - "BraTS2021_00504", - "BraTS2021_00505", - "BraTS2021_00506", - "BraTS2021_00507", - "BraTS2021_00510", - "BraTS2021_00511", - "BraTS2021_00512", - "BraTS2021_00513", - "BraTS2021_00517", - "BraTS2021_00518", - "BraTS2021_00519", - "BraTS2021_00520", - "BraTS2021_00523", - "BraTS2021_00524", - "BraTS2021_00525", - "BraTS2021_00526", - "BraTS2021_00528", - "BraTS2021_00529", - "BraTS2021_00530", - "BraTS2021_00532", - "BraTS2021_00533", - "BraTS2021_00537", - "BraTS2021_00538", - "BraTS2021_00539", - "BraTS2021_00540", - "BraTS2021_00542", - "BraTS2021_00543", - "BraTS2021_00544", - "BraTS2021_00545", - "BraTS2021_00547", - "BraTS2021_00548", - "BraTS2021_00550", - "BraTS2021_00551", - "BraTS2021_00552", - "BraTS2021_00554", - "BraTS2021_00555", - "BraTS2021_00556", - "BraTS2021_00557", - "BraTS2021_00559", - "BraTS2021_00561", - "BraTS2021_00563", - "BraTS2021_00565", - "BraTS2021_00567", - "BraTS2021_00568", - "BraTS2021_00569", - "BraTS2021_00570", - "BraTS2021_00571", - "BraTS2021_00572", - "BraTS2021_00574", - "BraTS2021_00575", - "BraTS2021_00576", - "BraTS2021_00577", - "BraTS2021_00578", - "BraTS2021_00579", - "BraTS2021_00580", - "BraTS2021_00581", - "BraTS2021_00582", - "BraTS2021_00584", - "BraTS2021_00588", - "BraTS2021_00589", - "BraTS2021_00590", - "BraTS2021_00591", - "BraTS2021_00593", - "BraTS2021_00594", - "BraTS2021_00596", - "BraTS2021_00598", - "BraTS2021_00599", - "BraTS2021_00601", - "BraTS2021_00604", - "BraTS2021_00606", - "BraTS2021_00608", - "BraTS2021_00610", - "BraTS2021_00611", - "BraTS2021_00612", - "BraTS2021_00613", - "BraTS2021_00615", - "BraTS2021_00616", - "BraTS2021_00618", - "BraTS2021_00619", - "BraTS2021_00620", - "BraTS2021_00621", - "BraTS2021_00622", - "BraTS2021_00623", - "BraTS2021_00624", - "BraTS2021_00625", - "BraTS2021_00626", - "BraTS2021_00628", - "BraTS2021_00631", - "BraTS2021_00636", - "BraTS2021_00638", - "BraTS2021_00640", - "BraTS2021_00642", - "BraTS2021_00645", - "BraTS2021_00646", - "BraTS2021_00649", - "BraTS2021_00650", - "BraTS2021_00651", - "BraTS2021_00652", - "BraTS2021_00655", - "BraTS2021_00656", - "BraTS2021_00657", - "BraTS2021_00658", - "BraTS2021_00659", - "BraTS2021_00661", - "BraTS2021_00663", - "BraTS2021_00667", - "BraTS2021_00668", - "BraTS2021_00674", - "BraTS2021_00675", - "BraTS2021_00676", - "BraTS2021_00677", - "BraTS2021_00679", - "BraTS2021_00680", - "BraTS2021_00682", - "BraTS2021_00683", - "BraTS2021_00684", - "BraTS2021_00685", - "BraTS2021_00686", - "BraTS2021_00687", - "BraTS2021_00688", - "BraTS2021_00689", - "BraTS2021_00690", - "BraTS2021_00691", - "BraTS2021_00692", - "BraTS2021_00694", - "BraTS2021_00697", - "BraTS2021_00698", - "BraTS2021_00703", - "BraTS2021_00704", - "BraTS2021_00705", - "BraTS2021_00706", - "BraTS2021_00707", - "BraTS2021_00708", - "BraTS2021_00714", - "BraTS2021_00718", - "BraTS2021_00723", - "BraTS2021_00724", - "BraTS2021_00725", - "BraTS2021_00728", - "BraTS2021_00729", - "BraTS2021_00730", - "BraTS2021_00731", - "BraTS2021_00732", - "BraTS2021_00734", - "BraTS2021_00736", - "BraTS2021_00737", - "BraTS2021_00739", - "BraTS2021_00740", - "BraTS2021_00742", - "BraTS2021_00744", - "BraTS2021_00746", - "BraTS2021_00747", - "BraTS2021_00750", - "BraTS2021_00751", - "BraTS2021_00756", - "BraTS2021_00758", - "BraTS2021_00760", - "BraTS2021_00764", - "BraTS2021_00765", - "BraTS2021_00767", - "BraTS2021_00768", - "BraTS2021_00773", - "BraTS2021_00774", - "BraTS2021_00778", - "BraTS2021_00780", - "BraTS2021_00781", - "BraTS2021_00784", - "BraTS2021_00787", - "BraTS2021_00788", - "BraTS2021_00789", - "BraTS2021_00792", - "BraTS2021_00795", - "BraTS2021_00796", - "BraTS2021_00797", - "BraTS2021_00799", - "BraTS2021_00800", - "BraTS2021_00801", - "BraTS2021_00802", - "BraTS2021_00803", - "BraTS2021_00804", - "BraTS2021_00805", - "BraTS2021_00806", - "BraTS2021_00807", - "BraTS2021_00808", - "BraTS2021_00809", - "BraTS2021_00811", - "BraTS2021_00814", - "BraTS2021_00816", - "BraTS2021_00819", - "BraTS2021_00820", - "BraTS2021_00823", - "BraTS2021_00824", - "BraTS2021_00828", - "BraTS2021_00830", - "BraTS2021_00831", - "BraTS2021_00837", - "BraTS2021_00838", - "BraTS2021_00839", - "BraTS2021_00840", - "BraTS2021_00999", - "BraTS2021_01000", - "BraTS2021_01002", - "BraTS2021_01003", - "BraTS2021_01007", - "BraTS2021_01008", - "BraTS2021_01009", - "BraTS2021_01010", - "BraTS2021_01011", - "BraTS2021_01012", - "BraTS2021_01013", - "BraTS2021_01014", - "BraTS2021_01015", - "BraTS2021_01016", - "BraTS2021_01017", - "BraTS2021_01019", - "BraTS2021_01020", - "BraTS2021_01021", - "BraTS2021_01022", - "BraTS2021_01023", - "BraTS2021_01024", - "BraTS2021_01025", - "BraTS2021_01026", - "BraTS2021_01027", - "BraTS2021_01028", - "BraTS2021_01029", - "BraTS2021_01030", - "BraTS2021_01031", - "BraTS2021_01032", - "BraTS2021_01033", - "BraTS2021_01034", - "BraTS2021_01035", - "BraTS2021_01036", - "BraTS2021_01038", - "BraTS2021_01039", - "BraTS2021_01040", - "BraTS2021_01041", - "BraTS2021_01042", - "BraTS2021_01044", - "BraTS2021_01045", - "BraTS2021_01046", - "BraTS2021_01047", - "BraTS2021_01048", - "BraTS2021_01049", - "BraTS2021_01052", - "BraTS2021_01053", - "BraTS2021_01054", - "BraTS2021_01055", - "BraTS2021_01056", - "BraTS2021_01057", - "BraTS2021_01059", - "BraTS2021_01060", - "BraTS2021_01061", - "BraTS2021_01062", - "BraTS2021_01064", - "BraTS2021_01065", - "BraTS2021_01067", - "BraTS2021_01068", - "BraTS2021_01069", - "BraTS2021_01070", - "BraTS2021_01071", - "BraTS2021_01073", - "BraTS2021_01074", - "BraTS2021_01075", - "BraTS2021_01076", - "BraTS2021_01077", - "BraTS2021_01078", - "BraTS2021_01080", - "BraTS2021_01082", - "BraTS2021_01083", - "BraTS2021_01084", - "BraTS2021_01085", - "BraTS2021_01086", - "BraTS2021_01087", - "BraTS2021_01090", - "BraTS2021_01091", - "BraTS2021_01092", - "BraTS2021_01093", - "BraTS2021_01094", - "BraTS2021_01095", - "BraTS2021_01097", - "BraTS2021_01098", - "BraTS2021_01099", - "BraTS2021_01100", - "BraTS2021_01102", - "BraTS2021_01103", - "BraTS2021_01104", - "BraTS2021_01105", - "BraTS2021_01106", - "BraTS2021_01107", - "BraTS2021_01108", - "BraTS2021_01109", - "BraTS2021_01111", - "BraTS2021_01112", - "BraTS2021_01113", - "BraTS2021_01114", - "BraTS2021_01115", - "BraTS2021_01116", - "BraTS2021_01117", - "BraTS2021_01119", - "BraTS2021_01120", - "BraTS2021_01121", - "BraTS2021_01122", - "BraTS2021_01125", - "BraTS2021_01126", - "BraTS2021_01127", - "BraTS2021_01128", - "BraTS2021_01129", - "BraTS2021_01130", - "BraTS2021_01131", - "BraTS2021_01132", - "BraTS2021_01133", - "BraTS2021_01134", - "BraTS2021_01135", - "BraTS2021_01136", - "BraTS2021_01138", - "BraTS2021_01139", - "BraTS2021_01140", - "BraTS2021_01143", - "BraTS2021_01144", - "BraTS2021_01145", - "BraTS2021_01148", - "BraTS2021_01149", - "BraTS2021_01150", - "BraTS2021_01151", - "BraTS2021_01153", - "BraTS2021_01154", - "BraTS2021_01155", - "BraTS2021_01156", - "BraTS2021_01157", - "BraTS2021_01158", - "BraTS2021_01159", - "BraTS2021_01160", - "BraTS2021_01161", - "BraTS2021_01163", - "BraTS2021_01164", - "BraTS2021_01165", - "BraTS2021_01166", - "BraTS2021_01167", - "BraTS2021_01168", - "BraTS2021_01171", - "BraTS2021_01172", - "BraTS2021_01174", - "BraTS2021_01175", - "BraTS2021_01176", - "BraTS2021_01177", - "BraTS2021_01178", - "BraTS2021_01179", - "BraTS2021_01180", - "BraTS2021_01182", - "BraTS2021_01184", - "BraTS2021_01185", - "BraTS2021_01186", - "BraTS2021_01187", - "BraTS2021_01188", - "BraTS2021_01189", - "BraTS2021_01190", - "BraTS2021_01192", - "BraTS2021_01193", - "BraTS2021_01194", - "BraTS2021_01195", - "BraTS2021_01196", - "BraTS2021_01197", - "BraTS2021_01199", - "BraTS2021_01200", - "BraTS2021_01201", - "BraTS2021_01202", - "BraTS2021_01203", - "BraTS2021_01204", - "BraTS2021_01205", - "BraTS2021_01207", - "BraTS2021_01213", - "BraTS2021_01214", - "BraTS2021_01215", - "BraTS2021_01216", - "BraTS2021_01217", - 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"BraTS2021_00167", - "BraTS2021_00172", - "BraTS2021_00176", - "BraTS2021_00183", - "BraTS2021_00185", - "BraTS2021_00186", - "BraTS2021_00187", - "BraTS2021_00192", - "BraTS2021_00193", - "BraTS2021_00194", - "BraTS2021_00195", - "BraTS2021_00196", - "BraTS2021_00199", - "BraTS2021_00201", - "BraTS2021_00203", - "BraTS2021_00206", - "BraTS2021_00209", - "BraTS2021_00211", - "BraTS2021_00212", - "BraTS2021_00214", - "BraTS2021_00216", - "BraTS2021_00217", - "BraTS2021_00218", - "BraTS2021_00219", - "BraTS2021_00221", - "BraTS2021_00227", - "BraTS2021_00228", - "BraTS2021_00230", - "BraTS2021_00231", - "BraTS2021_00235", - "BraTS2021_00236", - "BraTS2021_00238", - "BraTS2021_00239", - "BraTS2021_00240", - "BraTS2021_00241", - "BraTS2021_00242", - "BraTS2021_00243", - "BraTS2021_00246", - "BraTS2021_00249", - "BraTS2021_00250", - "BraTS2021_00251", - "BraTS2021_00253", - "BraTS2021_00254", - "BraTS2021_00259", - "BraTS2021_00261", - "BraTS2021_00262", - "BraTS2021_00266", - 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"BraTS2021_01185", - "BraTS2021_01187", - "BraTS2021_01189", - "BraTS2021_01190", - "BraTS2021_01191", - "BraTS2021_01192", - "BraTS2021_01195", - "BraTS2021_01196", - "BraTS2021_01197", - "BraTS2021_01198", - "BraTS2021_01201", - "BraTS2021_01202", - "BraTS2021_01203", - "BraTS2021_01204", - "BraTS2021_01205", - "BraTS2021_01206", - "BraTS2021_01207", - "BraTS2021_01208", - "BraTS2021_01209", - "BraTS2021_01210", - "BraTS2021_01211", - "BraTS2021_01212", - "BraTS2021_01213", - "BraTS2021_01214", - "BraTS2021_01216", - "BraTS2021_01217", - "BraTS2021_01218", - "BraTS2021_01221", - "BraTS2021_01222", - "BraTS2021_01223", - "BraTS2021_01225", - "BraTS2021_01226", - "BraTS2021_01227", - "BraTS2021_01230", - "BraTS2021_01231", - "BraTS2021_01235", - "BraTS2021_01236", - "BraTS2021_01237", - "BraTS2021_01238", - "BraTS2021_01239", - "BraTS2021_01240", - "BraTS2021_01241", - "BraTS2021_01242", - "BraTS2021_01243", - "BraTS2021_01244", - "BraTS2021_01247", - "BraTS2021_01248", - 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"BraTS2021_01372", - "BraTS2021_01373", - "BraTS2021_01374", - "BraTS2021_01375", - "BraTS2021_01376", - "BraTS2021_01378", - "BraTS2021_01379", - "BraTS2021_01380", - "BraTS2021_01383", - "BraTS2021_01384", - "BraTS2021_01385", - "BraTS2021_01387", - "BraTS2021_01388", - "BraTS2021_01389", - "BraTS2021_01390", - "BraTS2021_01391", - "BraTS2021_01392", - "BraTS2021_01393", - "BraTS2021_01394", - "BraTS2021_01395", - "BraTS2021_01396", - "BraTS2021_01397", - "BraTS2021_01398", - "BraTS2021_01399", - "BraTS2021_01401", - "BraTS2021_01402", - "BraTS2021_01403", - "BraTS2021_01404", - "BraTS2021_01405", - "BraTS2021_01406", - "BraTS2021_01407", - "BraTS2021_01409", - "BraTS2021_01410", - "BraTS2021_01412", - "BraTS2021_01413", - "BraTS2021_01414", - "BraTS2021_01415", - "BraTS2021_01416", - "BraTS2021_01417", - "BraTS2021_01418", - "BraTS2021_01419", - "BraTS2021_01420", - "BraTS2021_01421", - "BraTS2021_01423", - "BraTS2021_01424", - "BraTS2021_01425", - "BraTS2021_01426", - "BraTS2021_01428", - "BraTS2021_01429", - "BraTS2021_01430", - "BraTS2021_01431", - "BraTS2021_01435", - "BraTS2021_01436", - "BraTS2021_01437", - "BraTS2021_01440", - "BraTS2021_01441", - "BraTS2021_01442", - "BraTS2021_01443", - "BraTS2021_01444", - "BraTS2021_01445", - "BraTS2021_01447", - "BraTS2021_01448", - "BraTS2021_01449", - "BraTS2021_01450", - "BraTS2021_01452", - "BraTS2021_01453", - "BraTS2021_01454", - "BraTS2021_01455", - "BraTS2021_01456", - "BraTS2021_01457", - "BraTS2021_01458", - "BraTS2021_01459", - "BraTS2021_01461", - "BraTS2021_01463", - "BraTS2021_01464", - "BraTS2021_01465", - "BraTS2021_01466", - "BraTS2021_01467", - "BraTS2021_01468", - "BraTS2021_01469", - "BraTS2021_01470", - "BraTS2021_01472", - "BraTS2021_01473", - "BraTS2021_01475", - "BraTS2021_01476", - "BraTS2021_01477", - "BraTS2021_01478", - "BraTS2021_01479", - "BraTS2021_01480", - "BraTS2021_01481", - "BraTS2021_01482", - "BraTS2021_01483", - "BraTS2021_01484", - "BraTS2021_01488", - "BraTS2021_01489", - "BraTS2021_01490", - "BraTS2021_01491", - "BraTS2021_01492", - "BraTS2021_01493", - "BraTS2021_01494", - "BraTS2021_01495", - "BraTS2021_01496", - "BraTS2021_01498", - "BraTS2021_01499", - "BraTS2021_01500", - "BraTS2021_01501", - "BraTS2021_01502", - "BraTS2021_01503", - "BraTS2021_01504", - "BraTS2021_01507", - "BraTS2021_01508", - "BraTS2021_01509", - "BraTS2021_01511", - "BraTS2021_01512", - "BraTS2021_01513", - "BraTS2021_01514", - "BraTS2021_01515", - "BraTS2021_01516", - "BraTS2021_01517", - "BraTS2021_01518", - "BraTS2021_01519", - "BraTS2021_01521", - "BraTS2021_01522", - "BraTS2021_01523", - "BraTS2021_01524", - "BraTS2021_01526", - "BraTS2021_01527", - "BraTS2021_01529", - "BraTS2021_01530", - "BraTS2021_01531", - "BraTS2021_01532", - "BraTS2021_01533", - "BraTS2021_01534", - "BraTS2021_01535", - "BraTS2021_01536", - "BraTS2021_01537", - "BraTS2021_01538", - "BraTS2021_01540", - "BraTS2021_01541", - "BraTS2021_01542", - "BraTS2021_01543", - 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"BraTS2021_00452", - "BraTS2021_00453", - "BraTS2021_00454", - "BraTS2021_00455", - "BraTS2021_00457", - "BraTS2021_00459", - "BraTS2021_00464", - "BraTS2021_00466", - "BraTS2021_00468", - "BraTS2021_00469", - "BraTS2021_00477", - "BraTS2021_00478", - "BraTS2021_00480", - "BraTS2021_00481", - "BraTS2021_00483", - "BraTS2021_00485", - "BraTS2021_00488", - "BraTS2021_00491", - "BraTS2021_00493", - "BraTS2021_00494", - "BraTS2021_00495", - "BraTS2021_00496", - "BraTS2021_00498", - "BraTS2021_00500", - "BraTS2021_00501", - "BraTS2021_00502", - "BraTS2021_00505", - "BraTS2021_00506", - "BraTS2021_00507", - "BraTS2021_00510", - "BraTS2021_00511", - "BraTS2021_00514", - "BraTS2021_00516", - "BraTS2021_00517", - "BraTS2021_00518", - "BraTS2021_00519", - "BraTS2021_00520", - "BraTS2021_00523", - "BraTS2021_00525", - "BraTS2021_00528", - "BraTS2021_00529", - "BraTS2021_00532", - "BraTS2021_00533", - "BraTS2021_00537", - "BraTS2021_00543", - "BraTS2021_00544", - "BraTS2021_00545", - "BraTS2021_00547", - "BraTS2021_00548", - "BraTS2021_00549", - "BraTS2021_00552", - "BraTS2021_00554", - "BraTS2021_00555", - "BraTS2021_00556", - "BraTS2021_00557", - "BraTS2021_00558", - "BraTS2021_00559", - "BraTS2021_00561", - "BraTS2021_00563", - "BraTS2021_00565", - "BraTS2021_00567", - "BraTS2021_00568", - "BraTS2021_00569", - "BraTS2021_00570", - "BraTS2021_00571", - "BraTS2021_00572", - "BraTS2021_00574", - "BraTS2021_00575", - "BraTS2021_00576", - "BraTS2021_00577", - "BraTS2021_00578", - "BraTS2021_00579", - "BraTS2021_00580", - "BraTS2021_00581", - "BraTS2021_00582", - "BraTS2021_00583", - "BraTS2021_00586", - "BraTS2021_00587", - "BraTS2021_00590", - "BraTS2021_00591", - "BraTS2021_00593", - "BraTS2021_00594", - "BraTS2021_00596", - "BraTS2021_00597", - "BraTS2021_00598", - "BraTS2021_00599", - "BraTS2021_00601", - "BraTS2021_00602", - "BraTS2021_00604", - "BraTS2021_00605", - "BraTS2021_00606", - "BraTS2021_00607", - "BraTS2021_00608", - "BraTS2021_00610", - 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"BraTS2021_01092", - "BraTS2021_01094", - "BraTS2021_01095", - "BraTS2021_01096", - "BraTS2021_01097", - "BraTS2021_01098", - "BraTS2021_01099", - "BraTS2021_01100", - "BraTS2021_01101", - "BraTS2021_01102", - "BraTS2021_01104", - "BraTS2021_01106", - "BraTS2021_01107", - "BraTS2021_01109", - "BraTS2021_01110", - "BraTS2021_01111", - "BraTS2021_01112", - "BraTS2021_01114", - "BraTS2021_01115", - "BraTS2021_01117", - "BraTS2021_01118", - "BraTS2021_01119", - "BraTS2021_01120", - "BraTS2021_01123", - "BraTS2021_01124", - "BraTS2021_01125", - "BraTS2021_01128", - "BraTS2021_01129", - "BraTS2021_01130", - "BraTS2021_01132", - "BraTS2021_01133", - "BraTS2021_01135", - "BraTS2021_01136", - "BraTS2021_01137", - "BraTS2021_01139", - "BraTS2021_01140", - "BraTS2021_01141", - "BraTS2021_01142", - "BraTS2021_01143", - "BraTS2021_01144", - "BraTS2021_01145", - "BraTS2021_01146", - "BraTS2021_01147", - "BraTS2021_01148", - "BraTS2021_01151", - "BraTS2021_01152", - "BraTS2021_01153", - 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"BraTS2021_01209", - "BraTS2021_01210", - "BraTS2021_01211", - "BraTS2021_01212", - "BraTS2021_01213", - "BraTS2021_01214", - "BraTS2021_01215", - "BraTS2021_01216", - "BraTS2021_01217", - "BraTS2021_01218", - "BraTS2021_01219", - "BraTS2021_01220", - "BraTS2021_01221", - "BraTS2021_01223", - "BraTS2021_01224", - "BraTS2021_01225", - "BraTS2021_01227", - "BraTS2021_01228", - "BraTS2021_01229", - "BraTS2021_01231", - "BraTS2021_01232", - "BraTS2021_01233", - "BraTS2021_01234", - "BraTS2021_01235", - "BraTS2021_01237", - "BraTS2021_01238", - "BraTS2021_01239", - "BraTS2021_01240", - "BraTS2021_01241", - "BraTS2021_01243", - "BraTS2021_01244", - "BraTS2021_01245", - "BraTS2021_01246", - "BraTS2021_01247", - "BraTS2021_01248", - "BraTS2021_01249", - "BraTS2021_01250", - "BraTS2021_01251", - "BraTS2021_01252", - "BraTS2021_01254", - "BraTS2021_01255", - "BraTS2021_01257", - "BraTS2021_01258", - "BraTS2021_01259", - "BraTS2021_01260", - "BraTS2021_01261", - "BraTS2021_01262", - "BraTS2021_01263", - "BraTS2021_01264", - "BraTS2021_01265", - "BraTS2021_01266", - "BraTS2021_01267", - "BraTS2021_01269", - "BraTS2021_01270", - "BraTS2021_01271", - "BraTS2021_01272", - "BraTS2021_01273", - "BraTS2021_01274", - "BraTS2021_01275", - "BraTS2021_01276", - "BraTS2021_01277", - "BraTS2021_01279", - "BraTS2021_01281", - "BraTS2021_01282", - "BraTS2021_01283", - "BraTS2021_01284", - "BraTS2021_01285", - "BraTS2021_01286", - "BraTS2021_01287", - "BraTS2021_01288", - "BraTS2021_01289", - "BraTS2021_01292", - "BraTS2021_01293", - "BraTS2021_01294", - "BraTS2021_01295", - "BraTS2021_01296", - "BraTS2021_01297", - "BraTS2021_01298", - "BraTS2021_01299", - "BraTS2021_01300", - "BraTS2021_01301", - "BraTS2021_01302", - "BraTS2021_01303", - "BraTS2021_01304", - "BraTS2021_01305", - "BraTS2021_01306", - "BraTS2021_01307", - "BraTS2021_01308", - "BraTS2021_01309", - "BraTS2021_01310", - "BraTS2021_01311", - "BraTS2021_01312", - "BraTS2021_01313", - "BraTS2021_01316", - "BraTS2021_01318", - "BraTS2021_01319", - "BraTS2021_01320", - "BraTS2021_01323", - "BraTS2021_01324", - "BraTS2021_01325", - "BraTS2021_01326", - "BraTS2021_01327", - "BraTS2021_01328", - "BraTS2021_01329", - "BraTS2021_01331", - "BraTS2021_01333", - "BraTS2021_01335", - "BraTS2021_01336", - "BraTS2021_01337", - "BraTS2021_01338", - "BraTS2021_01339", - "BraTS2021_01340", - "BraTS2021_01341", - "BraTS2021_01342", - "BraTS2021_01343", - "BraTS2021_01344", - "BraTS2021_01345", - "BraTS2021_01346", - "BraTS2021_01347", - "BraTS2021_01348", - "BraTS2021_01349", - "BraTS2021_01350", - "BraTS2021_01351", - "BraTS2021_01352", - "BraTS2021_01353", - "BraTS2021_01354", - "BraTS2021_01355", - "BraTS2021_01356", - "BraTS2021_01357", - "BraTS2021_01359", - "BraTS2021_01360", - "BraTS2021_01361", - "BraTS2021_01362", - "BraTS2021_01363", - "BraTS2021_01364", - "BraTS2021_01365", - "BraTS2021_01367", - "BraTS2021_01368", - "BraTS2021_01369", - "BraTS2021_01370", - "BraTS2021_01375", - "BraTS2021_01376", - "BraTS2021_01377", - "BraTS2021_01381", - "BraTS2021_01382", - "BraTS2021_01386", - "BraTS2021_01387", - "BraTS2021_01388", - "BraTS2021_01389", - "BraTS2021_01390", - "BraTS2021_01391", - "BraTS2021_01392", - "BraTS2021_01393", - "BraTS2021_01394", - "BraTS2021_01397", - "BraTS2021_01398", - "BraTS2021_01399", - "BraTS2021_01400", - "BraTS2021_01401", - "BraTS2021_01402", - "BraTS2021_01404", - "BraTS2021_01408", - "BraTS2021_01410", - "BraTS2021_01411", - "BraTS2021_01412", - "BraTS2021_01421", - "BraTS2021_01422", - "BraTS2021_01423", - "BraTS2021_01424", - "BraTS2021_01425", - "BraTS2021_01426", - "BraTS2021_01427", - "BraTS2021_01428", - "BraTS2021_01429", - "BraTS2021_01430", - "BraTS2021_01432", - "BraTS2021_01433", - "BraTS2021_01434", - "BraTS2021_01435", - "BraTS2021_01437", - "BraTS2021_01438", - "BraTS2021_01439", - "BraTS2021_01440", - "BraTS2021_01442", - "BraTS2021_01443", - "BraTS2021_01445", - "BraTS2021_01446", - "BraTS2021_01447", - "BraTS2021_01450", - "BraTS2021_01451", - "BraTS2021_01452", - "BraTS2021_01453", - "BraTS2021_01454", - "BraTS2021_01455", - "BraTS2021_01457", - "BraTS2021_01458", - "BraTS2021_01460", - "BraTS2021_01461", - "BraTS2021_01462", - "BraTS2021_01463", - "BraTS2021_01465", - "BraTS2021_01466", - "BraTS2021_01467", - "BraTS2021_01468", - "BraTS2021_01469", - "BraTS2021_01471", - "BraTS2021_01472", - "BraTS2021_01474", - "BraTS2021_01475", - "BraTS2021_01476", - "BraTS2021_01477", - "BraTS2021_01479", - "BraTS2021_01480", - "BraTS2021_01481", - "BraTS2021_01482", - "BraTS2021_01483", - "BraTS2021_01485", - "BraTS2021_01486", - "BraTS2021_01487", - "BraTS2021_01488", - "BraTS2021_01489", - "BraTS2021_01490", - "BraTS2021_01491", - "BraTS2021_01492", - "BraTS2021_01494", - "BraTS2021_01495", - "BraTS2021_01496", - "BraTS2021_01497", - "BraTS2021_01498", - "BraTS2021_01499", - "BraTS2021_01500", - "BraTS2021_01501", - "BraTS2021_01502", - "BraTS2021_01503", - "BraTS2021_01504", - "BraTS2021_01505", - "BraTS2021_01506", - "BraTS2021_01507", - "BraTS2021_01508", - "BraTS2021_01509", - "BraTS2021_01510", - "BraTS2021_01512", - "BraTS2021_01513", - "BraTS2021_01514", - "BraTS2021_01515", - "BraTS2021_01516", - "BraTS2021_01517", - "BraTS2021_01518", - "BraTS2021_01520", - "BraTS2021_01521", - "BraTS2021_01522", - "BraTS2021_01523", - "BraTS2021_01524", - "BraTS2021_01525", - "BraTS2021_01526", - "BraTS2021_01528", - "BraTS2021_01529", - "BraTS2021_01530", - "BraTS2021_01531", - "BraTS2021_01532", - "BraTS2021_01536", - "BraTS2021_01538", - "BraTS2021_01539", - "BraTS2021_01540", - "BraTS2021_01541", - "BraTS2021_01542", - "BraTS2021_01544", - "BraTS2021_01546", - "BraTS2021_01547", - "BraTS2021_01548", - "BraTS2021_01550", - "BraTS2021_01551", - "BraTS2021_01552", - "BraTS2021_01553", - "BraTS2021_01554", - "BraTS2021_01555", - "BraTS2021_01557", - "BraTS2021_01558", - "BraTS2021_01559", - "BraTS2021_01560", - "BraTS2021_01562", - "BraTS2021_01563", - "BraTS2021_01564", - "BraTS2021_01565", - "BraTS2021_01566", - "BraTS2021_01567", - "BraTS2021_01569", - "BraTS2021_01571", - "BraTS2021_01572", - "BraTS2021_01573", - "BraTS2021_01575", - "BraTS2021_01576", - "BraTS2021_01577", - "BraTS2021_01578", - "BraTS2021_01579", - "BraTS2021_01580", - "BraTS2021_01581", - "BraTS2021_01582", - "BraTS2021_01583", - "BraTS2021_01584", - "BraTS2021_01585", - "BraTS2021_01586", - "BraTS2021_01587", - "BraTS2021_01589", - "BraTS2021_01590", - "BraTS2021_01591", - "BraTS2021_01592", - "BraTS2021_01593", - "BraTS2021_01594", - "BraTS2021_01595", - "BraTS2021_01596", - "BraTS2021_01597", - "BraTS2021_01599", - "BraTS2021_01601", - "BraTS2021_01602", - "BraTS2021_01603", - "BraTS2021_01604", - "BraTS2021_01605", - "BraTS2021_01606", - "BraTS2021_01607", - "BraTS2021_01608", - "BraTS2021_01609", - "BraTS2021_01610", - "BraTS2021_01611", - "BraTS2021_01613", - "BraTS2021_01614", - "BraTS2021_01615", - "BraTS2021_01617", - "BraTS2021_01618", - "BraTS2021_01619", - "BraTS2021_01620", - "BraTS2021_01622", - "BraTS2021_01624", - "BraTS2021_01625", - "BraTS2021_01626", - "BraTS2021_01627", - "BraTS2021_01630", - "BraTS2021_01631", - "BraTS2021_01632", - "BraTS2021_01633", - "BraTS2021_01634", - "BraTS2021_01635", - "BraTS2021_01636", - "BraTS2021_01637", - "BraTS2021_01639", - "BraTS2021_01640", - "BraTS2021_01641", - "BraTS2021_01642", - "BraTS2021_01644", - "BraTS2021_01646", - "BraTS2021_01647", - "BraTS2021_01648", - "BraTS2021_01649", - "BraTS2021_01650", - "BraTS2021_01651", - "BraTS2021_01652", - "BraTS2021_01653", - "BraTS2021_01654", - "BraTS2021_01655", - "BraTS2021_01658", - "BraTS2021_01660", - "BraTS2021_01661", - "BraTS2021_01662", - "BraTS2021_01663", - "BraTS2021_01664", - "BraTS2021_01666" - ], - "val": [ - "BraTS2021_00017", - "BraTS2021_00030", - "BraTS2021_00043", - "BraTS2021_00048", - "BraTS2021_00049", - "BraTS2021_00056", - "BraTS2021_00068", - "BraTS2021_00071", - "BraTS2021_00094", - "BraTS2021_00096", - "BraTS2021_00098", - "BraTS2021_00100", - "BraTS2021_00121", - "BraTS2021_00138", - "BraTS2021_00139", - "BraTS2021_00142", - "BraTS2021_00150", - "BraTS2021_00151", - "BraTS2021_00155", - "BraTS2021_00156", - "BraTS2021_00172", - "BraTS2021_00176", - "BraTS2021_00187", - "BraTS2021_00195", - "BraTS2021_00203", - "BraTS2021_00209", - "BraTS2021_00221", - "BraTS2021_00227", - "BraTS2021_00235", - "BraTS2021_00238", - "BraTS2021_00250", - "BraTS2021_00253", - "BraTS2021_00254", - "BraTS2021_00261", - "BraTS2021_00271", - "BraTS2021_00273", - "BraTS2021_00280", - "BraTS2021_00284", - "BraTS2021_00285", - "BraTS2021_00288", - "BraTS2021_00300", - "BraTS2021_00305", - "BraTS2021_00338", - "BraTS2021_00340", - "BraTS2021_00349", - "BraTS2021_00356", - "BraTS2021_00364", - "BraTS2021_00371", - "BraTS2021_00382", - "BraTS2021_00389", - "BraTS2021_00403", - "BraTS2021_00404", - "BraTS2021_00405", - "BraTS2021_00407", - "BraTS2021_00410", - "BraTS2021_00412", - "BraTS2021_00416", - "BraTS2021_00431", - "BraTS2021_00441", - "BraTS2021_00446", - "BraTS2021_00456", - "BraTS2021_00470", - "BraTS2021_00472", - "BraTS2021_00479", - "BraTS2021_00499", - "BraTS2021_00504", - "BraTS2021_00512", - "BraTS2021_00513", - "BraTS2021_00524", - "BraTS2021_00526", - "BraTS2021_00530", - "BraTS2021_00538", - "BraTS2021_00539", - "BraTS2021_00540", - "BraTS2021_00542", - "BraTS2021_00550", - "BraTS2021_00551", - "BraTS2021_00584", - "BraTS2021_00588", - "BraTS2021_00589", - "BraTS2021_00613", - "BraTS2021_00620", - "BraTS2021_00625", - "BraTS2021_00626", - "BraTS2021_00638", - "BraTS2021_00649", - "BraTS2021_00651", - "BraTS2021_00659", - "BraTS2021_00674", - "BraTS2021_00676", - "BraTS2021_00680", - "BraTS2021_00683", - "BraTS2021_00685", - "BraTS2021_00687", - "BraTS2021_00689", - "BraTS2021_00697", - "BraTS2021_00706", - "BraTS2021_00723", - "BraTS2021_00728", - "BraTS2021_00729", - "BraTS2021_00737", - "BraTS2021_00742", - "BraTS2021_00747", - "BraTS2021_00756", - "BraTS2021_00764", - "BraTS2021_00767", - "BraTS2021_00774", - "BraTS2021_00797", - "BraTS2021_00799", - "BraTS2021_00801", - "BraTS2021_00802", - "BraTS2021_00804", - "BraTS2021_00807", - "BraTS2021_00816", - "BraTS2021_00828", - "BraTS2021_01007", - "BraTS2021_01012", - "BraTS2021_01014", - "BraTS2021_01015", - "BraTS2021_01017", - "BraTS2021_01022", - "BraTS2021_01025", - "BraTS2021_01044", - "BraTS2021_01049", - "BraTS2021_01057", - "BraTS2021_01062", - "BraTS2021_01064", - "BraTS2021_01071", - "BraTS2021_01074", - "BraTS2021_01075", - "BraTS2021_01078", - "BraTS2021_01080", - "BraTS2021_01082", - "BraTS2021_01083", - "BraTS2021_01091", - "BraTS2021_01093", - "BraTS2021_01103", - "BraTS2021_01105", - "BraTS2021_01108", - "BraTS2021_01113", - "BraTS2021_01116", - "BraTS2021_01121", - "BraTS2021_01122", - "BraTS2021_01126", - "BraTS2021_01127", - "BraTS2021_01131", - "BraTS2021_01134", - "BraTS2021_01138", - "BraTS2021_01149", - "BraTS2021_01150", - "BraTS2021_01154", - "BraTS2021_01156", - "BraTS2021_01177", - "BraTS2021_01182", - "BraTS2021_01192", - "BraTS2021_01201", - "BraTS2021_01202", - "BraTS2021_01203", - "BraTS2021_01222", - "BraTS2021_01226", - "BraTS2021_01230", - "BraTS2021_01236", - "BraTS2021_01242", - "BraTS2021_01253", - "BraTS2021_01256", - "BraTS2021_01268", - "BraTS2021_01278", - "BraTS2021_01280", - "BraTS2021_01290", - "BraTS2021_01291", - "BraTS2021_01314", - "BraTS2021_01315", - "BraTS2021_01317", - "BraTS2021_01321", - "BraTS2021_01322", - "BraTS2021_01330", - "BraTS2021_01332", - "BraTS2021_01334", - "BraTS2021_01358", - "BraTS2021_01366", - "BraTS2021_01371", - "BraTS2021_01372", - "BraTS2021_01373", - "BraTS2021_01374", - "BraTS2021_01378", - "BraTS2021_01379", - "BraTS2021_01380", - "BraTS2021_01383", - "BraTS2021_01384", - "BraTS2021_01385", - "BraTS2021_01395", - "BraTS2021_01396", - "BraTS2021_01403", - "BraTS2021_01405", - "BraTS2021_01406", - "BraTS2021_01407", - "BraTS2021_01409", - "BraTS2021_01413", - "BraTS2021_01414", - "BraTS2021_01415", - "BraTS2021_01416", - "BraTS2021_01417", - "BraTS2021_01418", - "BraTS2021_01419", - "BraTS2021_01420", - "BraTS2021_01431", - "BraTS2021_01436", - "BraTS2021_01441", - "BraTS2021_01444", - "BraTS2021_01448", - "BraTS2021_01449", - "BraTS2021_01456", - "BraTS2021_01459", - "BraTS2021_01464", - "BraTS2021_01470", - "BraTS2021_01473", - "BraTS2021_01478", - "BraTS2021_01484", - "BraTS2021_01493", - "BraTS2021_01511", - "BraTS2021_01519", - "BraTS2021_01527", - "BraTS2021_01533", - "BraTS2021_01534", - "BraTS2021_01535", - "BraTS2021_01537", - "BraTS2021_01543", - "BraTS2021_01545", - "BraTS2021_01549", - "BraTS2021_01556", - "BraTS2021_01561", - "BraTS2021_01568", - "BraTS2021_01570", - "BraTS2021_01574", - "BraTS2021_01588", - "BraTS2021_01598", - "BraTS2021_01600", - "BraTS2021_01612", - "BraTS2021_01616", - "BraTS2021_01621", - "BraTS2021_01623", - "BraTS2021_01628", - "BraTS2021_01629", - "BraTS2021_01638", - "BraTS2021_01643", - "BraTS2021_01645", - "BraTS2021_01656", - "BraTS2021_01657", - "BraTS2021_01659", - "BraTS2021_01665" - ] - }, - "3": { - "train": [], - "val": [] - }, - "4": { - "train": [], - "val": [] - } -} \ No newline at end of file diff --git a/split/brats_splits_final.pkl b/split/brats_splits_final.pkl new file mode 100755 index 0000000000000000000000000000000000000000..7bb01360ecb7d299807a0caa51c971391129e70e GIT binary patch literal 375880 zcmbu`&&sCfm7Vb_sznqOk&z~zJ4h3g?xgca^hn99kON9G4Be6}_zZ5lQAz>Nf{9QB zn)Pe&z=xHCh;<0gB;T*q3m)+3zMjC%D|dX=-g~XJ_fsC|fBxBT|M|ao`NIGEZ;$uC zd*}0C{o)s2eE#O=zxw5We|-1OfBN!gUwrw+&;H}jKY#Q1`^N{LJpVV|dh_L{KmX<9 zyZ3(i)!+WzuYdCSufF`^Cx83ZFW&t8(=WgL^w*E?{@GuD`NikY^qVig`UmK{xBlV3 z`1tOh{PJf%{8#?|@%qKrkN@!Uv&T1&=RfiF%a8x>tFIqV|Ma`Je)i_qfA__6q3>S( z*FXQu$G89chyVXq-@W{+$4`Iy)7O9X`p;g!{pRu6w;%n@_b*<2^xX27&+pUc_g|jh ze|~;{@%;YfKmPvt^Y35(wW3)nk#?Qqdb-I_^k^$1(?%-8+>`*hy1B^zVQ-56Uu8hb}8S{JR<_9|QM#%flb z@l|JR*@g97J)%>&8|q^H7LTyiBV4&x>$z$r7j<52oflg(iK|*+?`TzbU%yo=Y}E=| 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11ec4dd1c51ebc412ab6cee09484d63d9fe9e0be Mon Sep 17 00:00:00 2001 From: qic999 Date: Wed, 10 Sep 2025 11:08:25 -0400 Subject: [PATCH 3/3] update --- README.md | 4 ++-- 1 file changed, 2 insertions(+), 2 deletions(-) diff --git a/README.md b/README.md index ad9642b..028acb5 100644 --- a/README.md +++ b/README.md @@ -33,7 +33,7 @@ See scripts/inference.sh See scripts/eval.sh -We provide 5-fold model checkpoints for the Brats and HepaticVessel datasets. These models can be directly downloaded from Hugging Face. +We provide 5-fold model checkpoints for the Brats and HepaticVessel datasets. These models can be directly downloaded from HuggingFace. ``` huggingface-cli download qicq1c/3D-TransUNet --local-dir . ``` @@ -49,7 +49,7 @@ huggingface-cli download qicq1c/3D-TransUNet --local-dir . | 5 | 0.9418 | 0.9141 | 0.8560 | 0.9040 | | **Avg** | **0.9371** | **0.9168** | **0.8663** | **0.9061** | -5-fold results for the Brats dataset +5-fold results for the HepaticVessel dataset | Fold | Vessel | Tumour | Avg | |------|----------|----------|----------|