├── .github └── workflows │ └── deploy-to-gh-pages.yml ├── .gitignore ├── .gitmodules ├── LICENSE ├── README.md ├── README_zh.md ├── api_inference.py ├── data ├── README.md ├── dev.csv ├── test.csv └── train.csv ├── docker ├── cpu │ ├── dockerfile │ ├── entrypoint.sh │ └── inference.py ├── gpu │ ├── dockerfile │ ├── entrypoint.sh │ └── inference.py └── gradio │ ├── cpu │ ├── app.py │ └── dockerfile │ └── gpu │ ├── app.py │ └── dockerfile ├── docs ├── en │ ├── citation.md │ ├── docker_implementation_for_model_inference.md │ ├── environment.md │ ├── fine_tune.md │ ├── index.md │ ├── inference.md │ ├── inference_api_for_developers.md │ ├── pretrain.md │ └── resources │ │ ├── finetune_models.md │ │ ├── gradio.jpeg │ │ ├── huggingface_copy.png │ │ ├── huggingface_demo.gif │ │ ├── plantllm.gif │ │ ├── platforms.md │ │ └── pretrain_models.md ├── mkdocs.yml └── zh │ ├── finetune_models_zh.md │ ├── platforms_zh.md │ └── pretrain_models_zh.md ├── example ├── data │ └── seq.fa └── marimo │ ├── 00_env_test.py │ ├── 01_use_finetune_model_demo.py │ ├── 02_compare_finetune_model.py │ ├── plant_DNA_LLMs_finetune_list.xlsx │ ├── readme.md │ └── requirements.txt ├── imgs ├── gradio.jpeg ├── huggingface_copy.png ├── huggingface_demo.gif ├── modelscope_copy.png ├── modelscope_demo.gif └── plantllm.gif ├── model_finetune.py ├── model_inference.py ├── model_pretrain_from_scratch.py ├── models └── README.md ├── notebook └── inference_demo.ipynb ├── pdllib ├── __init__.py ├── api.py ├── inference.py ├── metrics.py ├── models.py ├── task_map.py └── utils.py ├── requirements.txt └── scripts ├── README.md ├── hfd.sh ├── model_finetune_depreciated.py ├── run_finetune_test.sh └── run_inference_test.sh /.github/workflows/deploy-to-gh-pages.yml: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/zhangtaolab/Plant_DNA_LLMs/HEAD/.github/workflows/deploy-to-gh-pages.yml 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