{ "imports": [ "$import glob" ], "device": "$torch.device('cuda:0' if torch.cuda.is_available() else 'cpu')", "ckpt_path": "$@bundle_root + '/models/model.pt'", "dataset_dir": "/workspace/data", "output_dir": "./output", "datalist": "$list(sorted(glob.glob(@dataset_dir + '/*.nii*')))", "network_def": { "_target_": "UNet", "spatial_dims": 2, "in_channels": 1, "out_channels": 4, "channels": [ 16, 32, 64, 128, 256 ], "strides": [ 2, 2, 2, 2 ], "num_res_units": 2 }, "network": "$@network_def.to(@device)", "preprocessing": { "_target_": "Compose", "transforms": [ { "_target_": "LoadImaged", "keys": "image" }, { "_target_": "EnsureChannelFirstd", "keys": "image" }, { "_target_": "ScaleIntensityd", "keys": "image" }, { "_target_": "EnsureTyped", "keys": "image", "device": "@device" } ] }, "dataset": { "_target_": "Dataset", "data": "$[{'image': i} for i in @datalist]", "transform": "@preprocessing" }, "dataloader": { "_target_": "DataLoader", "dataset": "@dataset", "batch_size": 1, "shuffle": false, "num_workers": 0 }, "inferer": { "_target_": "SliceInferer", "roi_size": [ 256, 256 ], "spatial_dim": 2 }, "postprocessing": { "_target_": "Compose", "transforms": [ { "_target_": "Activationsd", "keys": "pred", "softmax": true }, { "_target_": "Invertd", "keys": "pred", "transform": "@preprocessing", "orig_keys": "image", "meta_key_postfix": "meta_dict", "nearest_interp": false, "to_tensor": true }, { "_target_": "AsDiscreted", "keys": "pred", "argmax": true }, { "_target_": "SaveImaged", "keys": "pred", "meta_keys": "pred_meta_dict", "output_dir": "@output_dir" } ] }, "handlers": [ { "_target_": "CheckpointLoader", "load_path": "@ckpt_path", "load_dict": { "model": "@network" } } ], "evaluator": { "_target_": "SupervisedEvaluator", "device": "@device", "val_data_loader": "@dataloader", "network": "@network", "inferer": "@inferer", "postprocessing": "@postprocessing", "val_handlers": "@handlers" }, "evaluating": [ "$@evaluator.run()" ] }