VenusFactory / environment.yml
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name: venus
channels:
- ostrokach
- https://mirrors.tuna.tsinghua.edu.cn/anaconda/pkgs/main
- bioconda
- conda-forge
- https://mirrors.tuna.tsinghua.edu.cn/anaconda/pkgs/main/
- https://mirrors.tuna.tsinghua.edu.cn/anaconda/pkgs/free/
- https://mirrors.tuna.tsinghua.edu.cn/anaconda/cloud/conda-forge/
dependencies:
- _libgcc_mutex=0.1=conda_forge
- _openmp_mutex=4.5=2_kmp_llvm
- anarci=2024.05.21=pyhdfd78af_0
- aria2=1.37.0=hbc8128a_2
- blas=1.0=mkl
- bzip2=1.0.8=h5eee18b_6
- c-ares=1.34.4=hb9d3cd8_0
- ca-certificates=2025.1.31=hbcca054_0
- conda-pack=0.8.1=pyhd8ed1ab_1
- dssp=2.2.1=1
- foldseek=9.427df8a=pl5321h5021889_2
- gawk=5.3.1=hcd3d067_0
- gettext=0.22.5=he02047a_3
- gettext-tools=0.22.5=he02047a_3
- gmp=6.3.0=hac33072_2
- hmmer=3.4=h503566f_3
- intel-openmp=2021.4.0=h06a4308_3561
- ld_impl_linux-64=2.40=h12ee557_0
- libasprintf=0.22.5=he8f35ee_3
- libasprintf-devel=0.22.5=he8f35ee_3
- libevent=2.1.12=hdbd6064_1
- libffi=3.4.4=h6a678d5_1
- libgcc=14.2.0=h77fa898_1
- libgcc-ng=14.2.0=h69a702a_1
- libgettextpo=0.22.5=he02047a_3
- libgettextpo-devel=0.22.5=he02047a_3
- libiconv=1.17=hd590300_2
- libidn2=2.3.7=hd590300_0
- liblzma=5.6.3=hb9d3cd8_1
- libnsl=2.0.1=hd590300_0
- libsqlite=3.47.2=hee588c1_0
- libssh2=1.11.1=hf672d98_0
- libstdcxx=14.2.0=hc0a3c3a_1
- libstdcxx-ng=14.2.0=h4852527_1
- libunistring=0.9.10=h7f98852_0
- libuuid=2.38.1=h0b41bf4_0
- libxcrypt=4.4.36=hd590300_1
- libxml2=2.13.5=h0d44e9d_1
- libzlib=1.3.1=hb9d3cd8_2
- llvm-openmp=19.1.6=h024ca30_0
- mkl=2021.4.0=h06a4308_640
- mkl-service=2.4.0=py310h7f8727e_0
- mkl_fft=1.3.1=py310hd6ae3a3_0
- mkl_random=1.2.2=py310h00e6091_0
- mmseqs2=16.747c6=pl5321hd6d6fdc_1
- mpfr=4.2.1=h90cbb55_3
- ncurses=6.5=he02047a_1
- openssl=3.4.1=h7b32b05_0
- perl=5.32.1=7_hd590300_perl5
- pip=24.2=py310h06a4308_0
- python=3.10.16=he725a3c_1_cpython
- readline=8.2=h5eee18b_0
- setuptools=75.1.0=py310h06a4308_0
- six=1.16.0=pyhd3eb1b0_1
- tk=8.6.13=noxft_h4845f30_101
- tmux=3.3a=h5eee18b_1
- wget=1.21.4=hda4d442_0
- wheel=0.44.0=py310h06a4308_0
- xz=5.4.6=h5eee18b_1
- zlib=1.3.1=hb9d3cd8_2
- pip:
- accelerate==1.1.1
- accelerator==2024.9.13
- addict==2.4.0
- aiofiles==23.2.1
- aiohappyeyeballs==2.4.3
- aiohttp==3.11.7
- aiosignal==1.3.1
- annotated-types==0.7.0
- anyio==4.6.2.post1
- argon2-cffi==23.1.0
- argon2-cffi-bindings==21.2.0
- arrow==1.3.0
- asttokens==2.4.1
- async-lru==2.0.4
- async-timeout==5.0.1
- attrs==24.2.0
- babel==2.16.0
- beautifulsoup4==4.12.3
- bio==1.7.1
- biopython==1.84
- biothings-client==0.3.1
- biotite==0.41.2
- biotraj==1.2.2
- bleach==6.2.0
- bottle==0.12.25
- brotli==1.1.0
- certifi==2024.8.30
- cffi==1.17.1
- cftime==1.6.4.post1
- charset-normalizer==3.4.0
- click==8.1.7
- cloudpathlib==0.20.0
- comm==0.2.2
- contourpy==1.3.1
- cycler==0.12.1
- datasets==3.1.0
- debugpy==1.8.9
- decorator==5.1.1
- defusedxml==0.7.1
- dill==0.3.8
- docker-pycreds==0.4.0
- easydict==1.13
- einops==0.8.0
- esm==3.1.3
- et-xmlfile==2.0.0
- exceptiongroup==1.2.2
- executing==2.1.0
- faiss-cpu==1.9.0.post1
- fake-useragent==1.5.1
- fastapi==0.115.5
- fastjsonschema==2.21.1
- ffmpy==0.4.0
- filelock==3.13.1
- fonttools==4.55.0
- fqdn==1.5.1
- frozenlist==1.5.0
- fsspec==2024.2.0
- gitdb==4.0.11
- gitpython==3.1.43
- gprofiler-official==1.0.0
- gradio==5.6.0
- gradio-client==1.4.3
- h11==0.14.0
- httpcore==1.0.7
- httpx==0.28.1
- huggingface-hub==0.26.2
- icetk==0.0.7
- idna==3.10
- ipykernel==6.29.5
- ipython==8.29.0
- isoduration==20.11.0
- jedi==0.19.2
- jinja2==3.1.3
- joblib==1.4.2
- json5==0.10.0
- jsonpointer==3.0.0
- jsonschema==4.23.0
- jsonschema-specifications==2024.10.1
- jupyter-client==8.6.3
- jupyter-core==5.7.2
- jupyter-events==0.10.0
- jupyter-lsp==2.2.5
- jupyter-server==2.14.2
- jupyter-server-terminals==0.5.3
- jupyterlab==4.3.2
- jupyterlab-pygments==0.3.0
- jupyterlab-server==2.27.3
- kiwisolver==1.4.7
- latex2mathml==3.77.0
- lightning-utilities==0.11.9
- llvmlite==0.43.0
- lmdb==1.5.1
- lxml==5.3.0
- markdown==3.7
- markdown-it-py==3.0.0
- markupsafe==2.1.5
- matplotlib==3.9.2
- matplotlib-inline==0.1.7
- mdtex2html==1.3.0
- mdtraj==1.10.2
- mdurl==0.1.2
- mistune==3.0.2
- mpmath==1.3.0
- msgpack==1.1.0
- msgpack-numpy==0.4.8
- multidict==6.1.0
- multiprocess==0.70.16
- mygene==3.2.2
- narwhals==1.31.0
- nbclient==0.10.1
- nbconvert==7.16.4
- nbformat==5.10.4
- nest-asyncio==1.6.0
- netcdf4==1.7.2
- networkx==3.2.1
- notebook-shim==0.2.4
- numba==0.60.0
- numpy==1.26.4
- nvidia-cublas-cu12==12.1.3.1
- nvidia-cuda-cupti-cu12==12.1.105
- nvidia-cuda-nvrtc-cu12==12.1.105
- nvidia-cuda-runtime-cu12==12.1.105
- nvidia-cudnn-cu12==9.1.0.70
- nvidia-cufft-cu12==11.0.2.54
- nvidia-curand-cu12==10.3.2.106
- nvidia-cusolver-cu12==11.4.5.107
- nvidia-cusparse-cu12==12.1.0.106
- nvidia-nccl-cu12==2.21.5
- nvidia-nvjitlink-cu12==12.1.105
- nvidia-nvtx-cu12==12.1.105
- openpyxl==3.1.5
- orjson==3.10.11
- overrides==7.7.0
- packaging==24.2
- pandas==2.2.3
- pandocfilters==1.5.1
- parso==0.8.4
- peft==0.14.0
- pexpect==4.9.0
- pillow==10.2.0
- platformdirs==4.3.6
- plotly==6.0.1
- pooch==1.8.2
- prometheus-client==0.21.1
- prompt-toolkit==3.0.48
- propcache==0.2.0
- protobuf==5.29.3
- psutil==6.1.0
- ptyprocess==0.7.0
- pure-eval==0.2.3
- pyarrow==18.0.0
- pycparser==2.22
- pydantic==2.10.1
- pydantic-core==2.27.1
- pydub==0.25.1
- pyg-lib==0.4.0+pt25cu121
- pygments==2.18.0
- pyparsing==3.2.0
- python-dateutil==2.9.0.post0
- python-json-logger==2.0.7
- python-multipart==0.0.12
- pytz==2024.2
- pyyaml==6.0.2
- pyzmq==26.2.0
- rdkit==2024.3.6
- referencing==0.35.1
- regex==2024.11.6
- requests==2.32.3
- rfc3339-validator==0.1.4
- rfc3986-validator==0.1.1
- rich==13.9.4
- rpds-py==0.22.3
- ruff==0.8.0
- safehttpx==0.1.1
- safetensors==0.4.5
- scikit-learn==1.5.2
- scipy==1.14.1
- seaborn==0.13.2
- semantic-version==2.10.0
- send2trash==1.8.3
- sentencepiece==0.2.0
- sentry-sdk==2.19.0
- setproctitle==1.3.4
- shellingham==1.5.4
- smmap==5.0.1
- sniffio==1.3.1
- soupsieve==2.6
- stack-data==0.6.3
- starlette==0.41.3
- sympy==1.13.1
- tenacity==9.0.0
- terminado==0.18.1
- threadpoolctl==3.5.0
- tinycss2==1.4.0
- tokenizers==0.20.3
- tomli==2.2.1
- tomlkit==0.12.0
- torch==2.5.1+cu121
- torch-cluster==1.6.3+pt25cu121
- torch-geometric==2.6.1
- torch-scatter==2.1.2+pt25cu121
- torch-sparse==0.6.18+pt25cu121
- torch-spline-conv==1.2.2+pt25cu121
- torchaudio==2.5.1+cu121
- torchmetrics==1.6.1
- torchtext==0.18.0
- torchvision==0.20.1+cu121
- tornado==6.4.2
- tqdm==4.67.0
- traitlets==5.14.3
- transformers==4.46.3
- triton==3.1.0
- typer==0.13.1
- types-python-dateutil==2.9.0.20241206
- typing-extensions==4.12.2
- tzdata==2024.2
- uri-template==1.3.0
- urllib3==2.2.3
- uvicorn==0.32.1
- waitress==3.0.2
- wandb==0.19.4
- wcwidth==0.2.13
- webcolors==24.11.1
- webencodings==0.5.1
- websocket-client==1.8.0
- websockets==12.0
- xxhash==3.5.0
- yarl==1.18.0
- zstd==1.5.6.1
prefix: /home/tanyang/miniconda3/envs/protrem