Yuanhan Mo Claude Opus 4.5 commited on
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Parent(s): 75854b3
Update README with project links, environments, server info and data paths
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README.md
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# OmniMorph: Deform All-in-One Framework for Medical Image Generation, Restoration and Registration based on conditional Deformation-Recovery Diffusion Model
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conda activate torch
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conda deactivate
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```
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source /home/data/Github/OmniMorph/ominenv/bin/activate
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##
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# OmniMorph: Deform All-in-One Framework for Medical Image Generation, Restoration and Registration based on conditional Deformation-Recovery Diffusion Model
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## Links
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- **Google Drive**: [Dataset & Resources](https://drive.google.com/drive/folders/1N72SeYKwnaMmFq9_NqqEXxZ1jUcw2SwG?usp=drive_link)
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- **Notion**: [Dataset Documentation](https://www.notion.so/Dataset-2bc2300266fe48dfafef580dacf16d50?pvs=4)
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- **Overleaf**: [Paper Draft](https://www.overleaf.com/4489753418kstfhwsxgtkw#a0dbad)
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- **Discord**: [Channel Invite](https://discord.gg/6HrD29T2)
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- **GitHub Repository**: `/home/data/Github/OmniMorph`
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## Environments
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### Data Processing
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- Library: **SimpleITK**
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- Environment:
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```bash
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conda activate torch
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conda deactivate
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```
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### Diffusion Model / DataEngineer (with BERT)
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> Note: 暂不更新，等 MIA 审稿
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```bash
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source /home/data/jzheng/Adaptive_Motion_Generator-master/pipenv/bin/activate
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deactivate
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```
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Or:
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```bash
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source /home/data/Github/OmniMorph/ominenv/bin/activate
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```
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### nnUNet
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```bash
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source ~/PycharmProjects/pythonProject/venv/bin/activate
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```
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### Masking CUDA
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```bash
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CUDA_VISIBLE_DEVICES=0,1,3 python ...
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```
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## Rental Server (租赁服务器)
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```bash
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ssh -p 49419 root@i-2.gpushare.com
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# Password: aFwd98tamsHPtDDhWzUqvXfTagUqfNg8
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```
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SSH Config:
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```
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Host gpushare
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HostName i-2.gpushare.com
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User root
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Port 49419
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```
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Conda environments on server:
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```bash
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conda activate OM
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conda activate unigrad
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```
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Data path: `/hy-tmp`
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## Data Paths
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| Item | Path |
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|------|------|
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| Dataset | `/home/data/Github/data/data_gen_def/DATASETS` |
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| Processed Data | `/home/data/Github/data/data_gen_def/DATASETS_processed` |
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| Data Processing Template | `/home/data/jzheng/Data_Engineering/dataclean_TotSeg.py` |
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## Related Documentation
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1. **DataEngineer**:
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- `/home/data/jzheng/Data_Engineering/README.md`
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- `/home/data/jzheng/data_process`
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2. **OmniMorph**: `/home/data/Github/OmniMorph/README.md`
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