├── LICENSE ├── README.md ├── chexpert-model ├── .gitignore ├── IRNet │ ├── augmentations.py │ ├── cam_to_ir_label.py │ ├── cam_to_ir_label_hdf5.py │ ├── combine_hdf5_files.py │ ├── convert_to_hdf5.py │ ├── make_pseudo_seg_labels.py │ ├── misc │ │ ├── __init__.py │ │ ├── imutils.py │ │ ├── indexing.py │ │ ├── pyutils.py │ │ └── torchutils.py │ ├── test_cams_seg_labels.py │ ├── test_resizable.py │ └── train_irnet.py ├── TODO.md ├── args │ ├── __init__.py │ ├── base_arg_parser.py │ ├── seg_base_arg_parser.py │ ├── seg_dist_arg_parser.py │ ├── seg_test_arg_parser.py │ ├── seg_train_arg_parser.py │ ├── test_arg_parser.py │ ├── train_arg_parser.py │ └── train_arg_parser_irnet.py ├── bash_scripts │ ├── train_3class.sh │ ├── train_ignore.sh │ ├── train_ones.sh │ └── train_zeros.sh ├── cams │ ├── gradcam.py │ ├── gradcam_nt.py │ └── integrated_gradients.py ├── constants │ ├── __init__.py │ └── constants.py ├── count_pos_valid_labels.py ├── create_100_per_train_set.py ├── create_semi_supervised_train_set.py ├── create_train_set_subsets.py ├── create_valid_set_subset.py ├── data │ ├── __init__.py │ ├── base_dataset.py │ ├── chexpert_dataset.py │ ├── chexpert_dataset_irnet.py │ ├── custom_dataset.py │ ├── distillation_dataset.py │ ├── distillation_loader.py │ ├── loader.py │ ├── pad_collate.py │ ├── segmentation_dataset.py │ ├── segmentation_loader.py │ └── task_sequences.json ├── dataset │ ├── __init__.py │ ├── base_dataset.py │ ├── ckpts │ │ └── debugging │ │ │ └── args.json │ ├── concat_dataset.py │ ├── constants.py │ ├── get_loader.py │ ├── label_mapper.py │ ├── nih_dataset.py │ ├── pad_collate.py │ ├── predict_config.json │ ├── su_dataset.py │ ├── task_sequences.json │ └── transforms │ │ ├── __init__.py │ │ └── clahe.py ├── eval │ ├── __init__.py │ ├── average_meter.py │ ├── below_curve_counter.py │ ├── evaluator.py │ └── loss.py ├── localization_eval │ ├── clean_annotations.py │ ├── eval.py │ ├── eval_constants.py │ ├── eval_helper.py │ ├── gt_segmentation.py │ ├── plot_helper.py │ ├── pred_segmentation.py │ └── segmentation_demo.ipynb ├── models │ ├── __init__.py │ ├── calibrate.py │ ├── models.py │ ├── resnet50.py │ ├── resnet_50_irn.py │ └── wildcat_pooling.py ├── optim │ ├── optimizer.py │ └── ranger.py ├── predict │ ├── __init__.py │ ├── configs │ │ ├── final.json │ │ └── toy.json │ ├── ensemble_predict.py │ └── predict.py ├── scripts │ ├── get_cams.py │ └── map_uncertain.py ├── segmentation_distillation.py ├── segmentation_test.py ├── segmentation_test_save_output.py ├── segmentation_train.py ├── segmentation_visualize_preds.py ├── select_ensemble.py ├── test.py ├── test_images.py ├── test_one.py ├── train.py ├── train_set_create_script.py └── util │ ├── __init__.py │ ├── image_util.py │ ├── io_util.py │ ├── label_util.py │ ├── localization_util.py │ └── model_util.py ├── poetry.lock ├── pyproject.toml ├── requirements.txt └── supervision_levels.png /LICENSE: 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