├── .gitignore ├── .ipynb_checkpoints ├── DDP_splitgpu_train_finetune_noprompt-checkpoint.py ├── README-checkpoint.md ├── SingleGPU_train_finetune_noprompt-checkpoint.py ├── cfg-checkpoint.py ├── environment-checkpoint.yml ├── finetune_combination_v3-checkpoint.png ├── train_ddpgpu_demo-checkpoint.sh ├── train_singlegpu_demo-checkpoint.sh ├── val_finetune_noprompt-checkpoint.py └── val_singlegpu_demo-checkpoint.sh ├── 2D_predictions_with_vis.ipynb ├── 3D_predictions_with_vis.ipynb ├── DDP_splitgpu_train_finetune_noprompt.py ├── LICENSE ├── README.md ├── SingleGPU_train_finetune_box.py ├── SingleGPU_train_finetune_noprompt.py ├── __pycache__ ├── cfg.cpython-311.pyc ├── dataset.cpython-311.pyc ├── dsc.cpython-311.pyc ├── funcs.cpython-311.pyc ├── losses.cpython-311.pyc └── utils.cpython-311.pyc ├── cfg.py ├── datasets └── MRI-Prostate │ ├── images │ ├── patient108 │ │ └── study108 │ │ │ └── volumn108 │ │ │ └── UCL29_7.png │ ├── patient112 │ │ └── study112 │ │ │ └── volumn112 │ │ │ └── UCL34_9.png │ ├── patient39 │ │ └── study39 │ │ │ └── volumn39 │ │ │ └── BMC26_16.png │ ├── patient4 │ │ └── study4 │ │ │ └── volumn4 │ │ │ └── BIDMC04_22.png │ ├── patient5 │ │ └── study5 │ │ │ └── volumn5 │ │ │ └── BIDMC05_32.png │ ├── patient56 │ │ └── study56 │ │ │ └── volumn56 │ │ │ └── I2CVB01_27.png │ ├── patient60 │ │ └── study60 │ │ │ └── volumn60 │ │ │ └── I2CVB05_25.png │ ├── patient77 │ │ └── study77 │ │ │ └── volumn77 │ │ │ ├── RUNMC03_12.png │ │ │ └── RUNMC03_16.png │ └── patient97 │ │ └── study97 │ │ └── volumn97 │ │ └── RUNMC23_14.png │ ├── masks │ ├── BIDMC04_22.png │ ├── BIDMC05_32.png │ ├── BMC26_16.png │ ├── I2CVB01_27.png │ ├── I2CVB05_25.png │ ├── RUNMC03_12.png │ ├── RUNMC03_16.png │ ├── RUNMC23_14.png │ ├── UCL29_7.png │ └── UCL34_9.png │ ├── train_5shot.csv │ └── val_5shot.csv ├── environment.yml ├── finetune_combination_v3.png ├── finetune_strategy_v9.png ├── models ├── .ipynb_checkpoints │ ├── efficientnet-checkpoint.py │ ├── resnet-checkpoint.py │ └── sam_LoRa-checkpoint.py ├── __pycache__ │ ├── discriminator.cpython-311.pyc │ ├── discriminator.cpython-37.pyc │ ├── resnet.cpython-37.pyc │ ├── sam_LST_adapter.cpython-311.pyc │ ├── sam_LoRa.cpython-311.pyc │ └── sam_LoRa.cpython-37.pyc ├── discriminator.py ├── efficientnet.py ├── implicitefficientnet.py ├── implicitnet.py ├── resnet.py ├── sam │ ├── .ipynb_checkpoints │ │ ├── __init__-checkpoint.py │ │ ├── automatic_mask_generator-checkpoint.py │ │ ├── build_sam-checkpoint.py │ │ └── predictor-checkpoint.py │ ├── __init__.py │ ├── __pycache__ │ │ ├── __init__.cpython-311.pyc │ │ ├── __init__.cpython-37.pyc │ │ ├── __init__.cpython-38.pyc │ │ ├── automatic_mask_generator.cpython-311.pyc │ │ ├── automatic_mask_generator.cpython-37.pyc │ │ ├── build_sam.cpython-311.pyc │ │ ├── build_sam.cpython-37.pyc │ │ ├── build_sam.cpython-38.pyc │ │ ├── predictor.cpython-311.pyc │ │ └── predictor.cpython-37.pyc │ ├── automatic_mask_generator.py │ ├── build_sam.py │ ├── modeling │ │ ├── .ipynb_checkpoints │ │ │ ├── __init__-checkpoint.py │ │ │ ├── common-checkpoint.py │ │ │ ├── image_encoder-checkpoint.py │ │ │ ├── mask_decoder-checkpoint.py │ │ │ ├── prompt_encoder-checkpoint.py │ │ │ ├── sam-checkpoint.py │ │ │ ├── tiny_vit_sam-checkpoint.py │ │ │ ├── transformer-checkpoint.py │ │ │ └── vit-checkpoint.py │ │ ├── __init__.py │ │ ├── __pycache__ │ │ │ ├── __init__.cpython-311.pyc │ │ │ ├── __init__.cpython-37.pyc │ │ │ ├── __init__.cpython-38.pyc │ │ │ ├── common.cpython-311.pyc │ │ │ ├── common.cpython-37.pyc │ │ │ ├── image_encoder.cpython-311.pyc │ │ │ ├── image_encoder.cpython-37.pyc │ │ │ ├── image_encoder.cpython-38.pyc │ │ │ ├── mask_decoder.cpython-311.pyc │ │ │ ├── mask_decoder.cpython-37.pyc │ │ │ ├── prompt_encoder.cpython-311.pyc │ │ │ ├── prompt_encoder.cpython-37.pyc │ │ │ ├── sam.cpython-311.pyc │ │ │ ├── sam.cpython-37.pyc │ │ │ ├── sam.cpython-38.pyc │ │ │ ├── tiny_vit_sam.cpython-311.pyc │ │ │ ├── tiny_vit_sam.cpython-37.pyc │ │ │ ├── transformer.cpython-311.pyc │ │ │ ├── transformer.cpython-37.pyc │ │ │ ├── vit.cpython-311.pyc │ │ │ └── vit.cpython-37.pyc │ │ ├── common.py │ │ ├── image_encoder.py │ │ ├── mask_decoder.py │ │ ├── prompt_encoder.py │ │ ├── sam.py │ │ ├── tiny_vit_sam.py │ │ ├── transformer.py │ │ └── vit.py │ ├── predictor.py │ └── utils │ │ ├── .ipynb_checkpoints │ │ └── transforms-checkpoint.py │ │ ├── __init__.py │ │ ├── __pycache__ │ │ ├── __init__.cpython-311.pyc │ │ ├── __init__.cpython-37.pyc │ │ ├── amg.cpython-311.pyc │ │ ├── amg.cpython-37.pyc │ │ ├── transforms.cpython-311.pyc │ │ └── transforms.cpython-37.pyc │ │ ├── amg.py │ │ ├── onnx.py │ │ └── transforms.py ├── sam_LoRa.py ├── senet.py ├── squeezenet.py ├── tag │ ├── __init__.py │ ├── __pycache__ │ │ ├── __init__.cpython-311.pyc │ │ ├── tag.cpython-311.pyc │ │ └── tag_layers.cpython-311.pyc │ ├── tag.py │ └── tag_layers.py ├── types_.py ├── unet │ ├── .ipynb_checkpoints │ │ ├── __init__-checkpoint.py │ │ └── unet_model-checkpoint.py │ ├── __init__.py │ ├── __pycache__ │ │ ├── __init__.cpython-311.pyc │ │ ├── res_net.cpython-311.pyc │ │ ├── unet_model.cpython-311.pyc │ │ └── unet_parts.cpython-311.pyc │ ├── res_net.py │ ├── unet_model.py │ └── unet_parts.py ├── utils.py ├── vae.py └── vgg.py ├── requirements.txt ├── train_ddpgpu_demo.sh ├── train_singlegpu_demo.sh ├── train_singlegpu_demo_adapter_mobile.sh ├── train_singlegpu_demo_box.sh ├── train_singlegpu_demo_lora_mobile.sh ├── utils ├── .ipynb_checkpoints │ ├── dataset-checkpoint.py │ ├── dsc-checkpoint.py │ └── funcs-checkpoint.py ├── __pycache__ │ ├── dataset.cpython-311.pyc │ ├── dsc.cpython-311.pyc │ ├── funcs.cpython-311.pyc │ ├── losses.cpython-311.pyc │ └── utils.cpython-311.pyc ├── dataset.py ├── dsc.py ├── funcs.py ├── losses.py └── utils.py ├── val_finetune_noprompt.py └── val_singlegpu_demo.sh /.gitignore: -------------------------------------------------------------------------------- 1 | *.pth 2 | 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