Upload inference.json
Browse files- inference.json +112 -0
inference.json
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{
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"dataset_dir": "/workspace/data/medical/spleen",
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"device": "$torch.device('cuda:0' if torch.cuda.is_available() else 'cpu')",
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"network_def": {
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"_target_": "UNet",
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"spatial_dims": 3,
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"in_channels": 1,
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"out_channels": 2,
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"channels": [
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16,
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32,
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64,
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128,
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256
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],
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"strides": [
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2,
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2,
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2,
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2
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],
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"num_res_units": 2,
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"norm": "batch"
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},
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"network": "$@network_def.to(@device)",
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"preprocessing": {
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"_target_": "Compose",
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"transforms": [
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{
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"_target_": "LoadImaged",
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"keys": "image"
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},
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{
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"_target_": "EnsureChannelFirstd",
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"keys": "image"
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},
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{
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"_target_": "ScaleIntensityRanged",
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"keys": "image",
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"a_min": -57,
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"a_max": 164,
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"b_min": 0,
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"b_max": 1,
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"clip": true
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},
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{
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"_target_": "EnsureTyped",
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"keys": "image"
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}
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]
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},
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"datalist": {
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"_target_": "DatasetFunc",
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"data": "$@dataset_dir + '/dataset.json'",
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"func": "$monai.data.load_decathlon_datalist",
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"is_segmentation": true,
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"data_list_key": "test",
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"base_dir": "@dataset_dir"
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},
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"dataset": {
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"_target_": "Dataset",
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| 62 |
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"data": "@datalist",
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| 63 |
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"transform": "@preprocessing"
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},
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"dataloader": {
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"_target_": "DataLoader",
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"dataset": "@dataset",
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"batch_size": 1,
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"shuffle": false,
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"num_workers": 4
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},
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"inferer": {
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"_target_": "SlidingWindowInferer",
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"roi_size": [
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96,
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96,
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96
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],
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"sw_batch_size": 4,
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"overlap": 0.5
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| 81 |
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},
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| 82 |
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"postprocessing": {
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| 83 |
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"_target_": "Compose",
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| 84 |
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"transforms": [
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| 85 |
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{
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| 86 |
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"_target_": "Activationsd",
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| 87 |
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"keys": "pred",
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| 88 |
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"softmax": true
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| 89 |
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},
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{
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| 91 |
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"_target_": "AsDiscreted",
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| 92 |
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"keys": "pred",
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| 93 |
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"argmax": true
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| 94 |
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},
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| 95 |
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{
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"_target_": "SaveImaged",
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| 97 |
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"keys": "pred",
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| 98 |
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"meta_keys": "image_meta_dict",
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| 99 |
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"output_dir": "eval"
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| 100 |
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}
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| 101 |
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]
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| 102 |
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},
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| 103 |
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"evaluator": {
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| 104 |
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"_target_": "SupervisedEvaluator",
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| 105 |
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"device": "@device",
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| 106 |
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"val_data_loader": "@dataloader",
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| 107 |
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"network": "@network",
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| 108 |
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"inferer": "@inferer",
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| 109 |
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"postprocessing": "@postprocessing",
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| 110 |
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"amp": false
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| 111 |
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}
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| 112 |
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}
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