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| Original file line number | Diff line number | Diff line change |
|---|---|---|
| @@ -0,0 +1,94 @@ | ||
| { | ||
| "command": "train", | ||
| "gpu": 7, | ||
| "target_suffix": "_seg-manual", | ||
| "roi_suffix": null, | ||
| "bids_path": "../duke/sct_testing/large/", | ||
| "random_seed": 1313, | ||
| "contrast_train_validation": ["acq-sup_T2star", "acq-c1c3_T2star", "acq-c4c7_T2star", "acq-ax_T2star", "acq-inf_T2star"], | ||
| "contrast_balance": {}, | ||
| "contrast_test": ["acq-sup_T2star", "acq-c1c3_T2star", "acq-c4c7_T2star", "acq-ax_T2star", "acq-inf_T2star"], | ||
| "center_test": [], | ||
| "retrain_model": null, | ||
| "out_channel": 1, | ||
| "depth": 3, | ||
| "missing_modality": false, | ||
| "batch_size": 32, | ||
| "dropout_rate": 0.3, | ||
| "batch_norm_momentum": 0.1, | ||
| "num_epochs": 50, | ||
| "initial_lr": 0.001, | ||
| "lr_scheduler": {"name": "CyclicLR", "base_lr": 0.0001, "max_lr": 0.001}, | ||
| "loss": {"name": "dice"}, | ||
| "log_directory": "log_sct-t2starw", | ||
| "film_layers": [0, 0, 0, 0, 0, 0, 0, 0], | ||
| "attention_unet": false, | ||
| "mixup_bool": false, | ||
| "mixup_alpha": 2, | ||
| "metadata": null, | ||
| "multichannel": false, | ||
| "slice_axis": "axial", | ||
| "split_method": "per_patient", | ||
| "train_fraction": 0.6, | ||
| "test_fraction": 0.2, | ||
| "balance_samples": false, | ||
| "slice_filter": {"filter_empty_mask": false, "filter_empty_input": true}, | ||
| "slice_filter_roi": 10, | ||
| "uncertainty": {"epistemic": false, "aleatoric": false, "n_it": 0}, | ||
| "unet_3D": false, | ||
| "binarize_prediction": false, | ||
| "early_stopping_patience": 20, | ||
| "early_stopping_epsilon": 0.1, | ||
| "eval_params": { | ||
| "targetSize": {"unit": "vox", "thr": [20, 100]}, | ||
| "removeSmall": {"unit": "vox", "thr": 3}, | ||
| "overlap": {"unit": "vox", "thr": 3} | ||
| }, | ||
| "transformation_training": { | ||
| "Resample": { | ||
| "wspace": 0.75, | ||
| "hspace": 0.75 | ||
| }, | ||
| "DilateGT": { | ||
| "dilation_factor": 0 | ||
| }, | ||
| "CenterCrop2D": { | ||
| "size": [160, 160] | ||
| }, | ||
| "ElasticTransform": { | ||
| "alpha_range": [28.0, 30.0], | ||
| "sigma_range": [3.5, 4.5], | ||
| "p": 0.1 | ||
| }, | ||
| "RandomAffine": { | ||
| "degrees": 4.6, | ||
| "translate": [0.03, 0.03], | ||
| "scale": [0.98, 1.02] | ||
| }, | ||
| "ToTensor": {}, | ||
| "NormalizeInstance": {} | ||
| }, | ||
| "transformation_validation": { | ||
| "Resample": { | ||
| "wspace": 0.75, | ||
| "hspace": 0.75 | ||
| }, | ||
| "CenterCrop2D": { | ||
| "size": [160, 160] | ||
| }, | ||
| "ToTensor": {}, | ||
| "NormalizeInstance": {} | ||
| }, | ||
| "transformation_testing": { | ||
| "Resample": { | ||
| "wspace": 0.75, | ||
| "hspace": 0.75 | ||
| }, | ||
| "CenterCrop2D": { | ||
| "size": [160, 160] | ||
| }, | ||
| "ToTensor": {}, | ||
| "NormalizeInstance": {} | ||
| }, | ||
| "debugging": false | ||
| } |
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