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environment.yml
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name: rnamsm
channels:
- pytorch
- bioconda
- conda-forge
- https://mirrors.tuna.tsinghua.edu.cn/anaconda/pkgs/main
- defaults
dependencies:
- _libgcc_mutex=0.1=main
- _openmp_mutex=4.5=1_gnu
- argon2-cffi=20.1.0=py38h27cfd23_1
- async_generator=1.10=pyhd3eb1b0_0
- attrs=20.3.0=pyhd3eb1b0_0
- autopep8=1.5.5=pyhd3eb1b0_0
- backcall=0.2.0=pyhd3eb1b0_0
- biopython=1.78=py38h7f8727e_0
- blas=1.0=mkl
- bleach=3.3.0=pyhd3eb1b0_0
- boto3=1.21.27=pyhd8ed1ab_0
- botocore=1.24.27=pyhd8ed1ab_0
- bottleneck=1.3.4=py38hce1f21e_0
- brotlipy=0.7.0=py38h8df0ef7_1001
- ca-certificates=2022.5.18.1=ha878542_0
- certifi=2022.5.18.1=py38h578d9bd_0
- cffi=1.14.5=py38h261ae71_0
- charset-normalizer=2.0.12=pyhd8ed1ab_0
- cryptography=35.0.0=py38ha5dfef3_0
- cudatoolkit=11.0.221=h6bb024c_0
- cycler=0.10.0=py38_0
- cython=0.29.21=py38h2531618_0
- dbus=1.13.18=hb2f20db_0
- decorator=4.4.2=pyhd3eb1b0_0
- defusedxml=0.6.0=pyhd3eb1b0_0
- entrypoints=0.3=py38_0
- expat=2.2.10=he6710b0_2
- filelock=3.6.0=pyhd8ed1ab_0
- flake8=3.8.4=py_0
- fontconfig=2.13.1=h6c09931_0
- freetype=2.10.4=h5ab3b9f_0
- glib=2.67.4=h36276a3_1
- gst-plugins-base=1.14.0=h8213a91_2
- gstreamer=1.14.0=h28cd5cc_2
- hhsuite=3.3.0=py38pl526h6ed170a_1
- icu=58.2=he6710b0_3
- idna=3.3=pyhd8ed1ab_0
- importlib_metadata=2.0.0=1
- infernal=1.1.2=h516909a_3
- iniconfig=1.1.1=pyhd3eb1b0_0
- intel-openmp=2020.2=254
- ipykernel=5.3.4=py38h5ca1d4c_0
- ipython=7.20.0=py38hb070fc8_1
- ipython_genutils=0.2.0=pyhd3eb1b0_1
- ipywidgets=7.6.3=pyhd3eb1b0_1
- jedi=0.17.0=py38_0
- jinja2=2.11.3=pyhd3eb1b0_0
- jmespath=1.0.0=pyhd8ed1ab_0
- jpeg=9b=h024ee3a_2
- jsonschema=3.2.0=py_2
- jupyter=1.0.0=py38_7
- jupyter_client=6.1.7=py_0
- jupyter_console=6.2.0=py_0
- jupyter_core=4.7.1=py38h06a4308_0
- jupyterlab_pygments=0.1.2=py_0
- jupyterlab_widgets=1.0.0=pyhd3eb1b0_1
- kiwisolver=1.3.1=py38h2531618_0
- lcms2=2.11=h396b838_0
- ld_impl_linux-64=2.33.1=h53a641e_7
- libedit=3.1.20191231=h14c3975_1
- libffi=3.3=he6710b0_2
- libgcc=7.2.0=h69d50b8_2
- libgcc-ng=9.1.0=hdf63c60_0
- libgfortran-ng=7.3.0=hdf63c60_0
- libgomp=9.3.0=h5101ec6_17
- libllvm11=11.1.0=h3826bc1_1
- libpng=1.6.37=hbc83047_0
- libprotobuf=3.19.1=h4ff587b_0
- libsodium=1.0.18=h7b6447c_0
- libstdcxx-ng=9.1.0=hdf63c60_0
- libtiff=4.1.0=h2733197_1
- libuuid=1.0.3=h1bed415_2
- libuv=1.40.0=h7b6447c_0
- libxcb=1.14=h7b6447c_0
- libxml2=2.9.10=hb55368b_3
- llvmlite=0.38.0=py38h4ff587b_0
- lz4-c=1.9.3=h2531618_0
- matplotlib=3.3.4=py38h06a4308_0
- matplotlib-base=3.3.4=py38h62a2d02_0
- mccabe=0.6.1=py38_1
- mistune=0.8.4=py38h7b6447c_1000
- mkl=2020.2=256
- mkl-service=2.3.0=py38he904b0f_0
- mkl_fft=1.2.1=py38h54f3939_0
- mkl_random=1.1.1=py38h0573a6f_0
- more-itertools=8.7.0=pyhd3eb1b0_0
- mypy=0.800=pyhd3eb1b0_0
- mypy_extensions=0.4.3=py38_0
- nbclient=0.5.2=pyhd3eb1b0_0
- nbconvert=6.0.7=py38_0
- nbformat=5.1.2=pyhd3eb1b0_1
- ncurses=6.2=he6710b0_1
- nest-asyncio=1.5.1=pyhd3eb1b0_0
- ninja=1.10.2=py38hff7bd54_0
- nodejs=6.13.1=0
- notebook=6.2.0=py38h06a4308_0
- numba=0.55.1=py38h51133e4_0
- numexpr=2.7.3=py38hb2eb853_0
- olefile=0.46=py_0
- openssl=1.1.1q=h7f8727e_0
- packaging=20.9=pyhd3eb1b0_0
- pandoc=2.11=hb0f4dca_0
- pandocfilters=1.4.3=py38h06a4308_1
- parso=0.8.1=pyhd3eb1b0_0
- pcre=8.44=he6710b0_0
- perl=5.26.2=h36c2ea0_1008
- pexpect=4.8.0=pyhd3eb1b0_3
- pickleshare=0.7.5=pyhd3eb1b0_1003
- pillow=8.1.0=py38he98fc37_0
- pip=21.0.1=py38h06a4308_0
- pluggy=0.13.1=py38_0
- prometheus_client=0.9.0=pyhd3eb1b0_0
- prompt-toolkit=3.0.8=py_0
- prompt_toolkit=3.0.8=0
- protobuf=3.19.1=py38h295c915_0
- psutil=5.8.0=py38h27cfd23_1
- ptyprocess=0.7.0=pyhd3eb1b0_2
- py=1.10.0=pyhd3eb1b0_0
- pycodestyle=2.6.0=pyhd3eb1b0_0
- pycparser=2.20=py_2
- pyflakes=2.2.0=pyhd3eb1b0_0
- pygments=2.8.0=pyhd3eb1b0_0
- pyopenssl=22.0.0=pyhd8ed1ab_0
- pyparsing=2.4.7=pyhd3eb1b0_0
- pyqt=5.9.2=py38h05f1152_4
- pyrsistent=0.17.3=py38h7b6447c_0
- pysocks=1.7.1=py38h578d9bd_4
- pytest=6.2.2=py38h06a4308_2
- python=3.8.5=h7579374_1
- python-dateutil=2.8.1=pyhd3eb1b0_0
- python-lmdb=1.2.1=py38h2531618_1
- python_abi=3.8=2_cp38
- pytorch=1.7.1=py3.8_cuda11.0.221_cudnn8.0.5_0
- pytz=2021.1=pyhd3eb1b0_0
- pyzmq=20.0.0=py38h2531618_1
- qt=5.9.7=h5867ecd_1
- qtconsole=5.0.2=pyhd3eb1b0_0
- qtpy=1.9.0=py_0
- readline=8.1=h27cfd23_0
- requests=2.27.1=pyhd8ed1ab_0
- s3transfer=0.5.2=pyhd8ed1ab_0
- scipy=1.6.0=py38h91f5cce_0
- seaborn=0.11.1=pyhd3eb1b0_0
- send2trash=1.5.0=pyhd3eb1b0_1
- sip=4.19.13=py38he6710b0_0
- six=1.15.0=py38h06a4308_0
- sqlite=3.33.0=h62c20be_0
- tape_proteins=0.5=pyhd8ed1ab_0
- tbb=2021.5.0=hd09550d_0
- tensorboardx=2.5=pyhd8ed1ab_0
- terminado=0.9.2=py38h06a4308_0
- testpath=0.4.4=pyhd3eb1b0_0
- tk=8.6.10=hbc83047_0
- toml=0.10.1=py_0
- torchaudio=0.7.2=py38
- torchvision=0.8.2=py38_cu110
- tornado=6.1=py38h27cfd23_0
- traitlets=5.0.5=pyhd3eb1b0_0
- typed-ast=1.4.2=py38h27cfd23_1
- typing_extensions=3.7.4.3=pyha847dfd_0
- urllib3=1.26.9=pyhd8ed1ab_0
- wcwidth=0.2.5=py_0
- webencodings=0.5.1=py38_1
- wheel=0.36.2=pyhd3eb1b0_0
- widgetsnbextension=3.5.1=py38_0
- xz=5.2.5=h7b6447c_0
- zeromq=4.3.3=he6710b0_3
- zipp=3.4.0=pyhd3eb1b0_0
- zlib=1.2.11=h7b6447c_3
- zstd=1.4.5=h9ceee32_0
- pip:
- absl-py==1.2.0
- aiohttp==3.8.1
- aiosignal==1.2.0
- antlr4-python3-runtime==4.8
- async-timeout==4.0.2
- axial-positional-embedding==0.2.1
- cachetools==5.2.0
- click==8.1.3
- contextlib2==21.6.0
- einops==0.6.0
- fair-esm==1.0.2
- frozenlist==1.3.0
- fsspec==2022.5.0
- future==0.18.2
- google-auth==2.11.0
- google-auth-oauthlib==0.4.6
- grpcio==1.47.0
- huggingface-hub==0.8.1
- hydra==2.5
- hydra-core==1.1.1
- importlib-metadata==4.12.0
- importlib-resources==5.8.0
- joblib==1.1.0
- local-attention==1.8.4
- lxml==4.9.1
- markdown==3.4.1
- markupsafe==2.0.1
- ml-collections==0.1.1
- multidict==6.0.2
- numpy==1.19.2
- oauthlib==3.2.0
- omegaconf==2.1.2
- opencv-python==4.7.0.68
- pandas==1.3.1
- pandas-datareader==0.10.0
- performer-pytorch==1.1.4
- pyasn1==0.4.8
- pyasn1-modules==0.2.8
- pydeprecate==0.3.1
- pytorch-lightning==1.5.10
- pyyaml==5.4.1
- regex==2022.3.15
- requests-oauthlib==1.3.1
- rna-fm==0.1.0
- rsa==4.8
- sacremoses==0.0.49
- scikit-learn==0.24.0
- setuptools==59.5.0
- tensorboard==2.8.0
- tensorboard-data-server==0.6.1
- tensorboard-plugin-wit==1.8.1
- threadpoolctl==3.1.0
- tokenizers==0.12.1
- torchmetrics==0.7.3
- torchsummary==1.5.1
- tqdm==4.62.0
- transformers==4.17.0
- werkzeug==2.0.3
- yarl==1.7.2
prefix: /lustre/home/ykzhang/anaconda3/envs/rnamsm