diff --git a/config/cascaded.json b/config/cascaded.json new file mode 100644 index 0000000..8240ec7 --- /dev/null +++ b/config/cascaded.json @@ -0,0 +1,74 @@ +{ + "command": "test", + "gpu_ids": [0], + "path_output": "seg_ms_randomrater_output", + "model_name": "seg_ms_randomrater_model", + "debugging": true, + "object_detection_params": { + "object_detection_path": "/home/GRAMES.POLYMTL.CA/uzmac/model_seg_ms_mp2rage/seg_sc_output/", + "safety_factor": [1.1, 1.1, 1.1] + }, + "loader_parameters": { + "path_data": ["basel-mp2rage-preprocessed-lesionseg/data_processed"], + "subject_selection": { + "n": [], + "metadata": [], + "value": [] + }, + "target_suffix": ["_lesion-manual"], + "extensions": [], + "roi_params": { + "suffix": null, + "slice_filter_roi": null + }, + "contrast_params": { + "training_validation": ["UNIT1"], + "testing": ["UNIT1"], + "balance": {} + }, + "slice_filter_params": { + "filter_empty_mask": true, + "filter_empty_input": true + }, + "slice_axis": "axial", + "multichannel": false, + "soft_gt": false + }, + "split_dataset": { + "fname_split": null, + "random_seed": 42, + "center_test": [], + "method": "per_patient", + "balance": null, + "train_fraction": 0.75, + "test_fraction": 0.2 + }, + "uncertainty": { + "epistemic": false, + "aleatoric": false, + "n_it": 0 + }, + "postprocessing": {"binarize_prediction": {"thr": 0.5}}, + "evaluation_parameters": {}, + "transformation": { + "Resample": { + "wspace": 1.0, + "hspace": 1.0, + "dspace": 1.0 + }, + "CenterCrop": { + "size": [64, 128, 32] + }, + "NumpyToTensor": {}, + "NormalizeInstance": { + "applied_to": ["im"] + } + }, + "Modified3DUNet": { + "applied": true, + "length_3D": [64, 128, 32], + "stride_3D": [64, 128, 32], + "attention": false, + "n_filters": 8 + } +} \ No newline at end of file