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environment.yml
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environment.yml
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name: genomic_gnn
channels:
- conda-forge
dependencies:
- bzip2=1.0.8=h3422bc3_4
- ca-certificates=2023.5.7=hf0a4a13_0
- libffi=3.4.2=h3422bc3_5
- libsqlite=3.41.2=hb31c410_1
- libzlib=1.2.13=h03a7124_4
- ncurses=6.3=h07bb92c_1
- openssl=3.1.0=h53f4e23_3
- pip=23.1.2=pyhd8ed1ab_0
- python=3.9.16=hea58f1e_0_cpython
- readline=8.2=h92ec313_1
- setuptools=67.7.2=pyhd8ed1ab_0
- tk=8.6.12=he1e0b03_0
- wheel=0.40.0=pyhd8ed1ab_0
- xz=5.2.6=h57fd34a_0
- pip:
- aiohttp==3.8.4
- aiosignal==1.3.1
- alembic==1.11.1
- appdirs==1.4.4
- async-timeout==4.0.2
- attrs==23.1.0
- beautifulsoup4==4.12.2
- certifi==2023.5.7
- charset-normalizer==3.1.0
- click==8.1.3
- cmaes==0.9.1
- colorlog==6.7.0
- contourpy==1.0.7
- cycler==0.11.0
- docker-pycreds==0.4.0
- faiss-cpu==1.7.4
- filelock==3.12.0
- fonttools==4.39.4
- frozenlist==1.3.3
- fsspec==2023.5.0
- gdown==4.7.1
- gensim==4.3.1
- gitdb==4.0.10
- gitpython==3.1.31
- huggingface-hub==0.14.1
- idna==3.4
- importlib-resources==5.12.0
- jinja2==3.1.2
- joblib==1.2.0
- jsonref==1.1.0
- jsonschema==4.17.3
- kiwisolver==1.4.4
- levenshtein==0.21.1
- lightning-utilities==0.8.0
- llvmlite==0.40.1
- mako==1.2.4
- markupsafe==2.1.2
- matplotlib==3.7.1
- mpmath==1.3.0
- multidict==6.0.4
- networkx==2.8.8
- node2vec==0.4.6
- numba==0.57.1
- numpy==1.24.3
- optuna==3.2.0
- packaging==23.1
- pandas==2.0.1
- pathtools==0.1.2
- pillow==9.5.0
- protobuf==4.23.0
- psutil==5.9.5
- pydantic==1.10.9
- pynndescent==0.5.10
- pyparsing==3.0.9
- pyrsistent==0.19.3
- pysocks==1.7.1
- python-dateutil==2.8.2
- pytorch-lightning==2.0.2
- pytz==2023.3
- pyyaml==6.0
- rapidfuzz==3.2.0
- regex==2023.5.5
- requests==2.30.0
- scikit-learn==1.2.2
- scipy==1.10.1
- seaborn==0.12.2
- sentry-sdk==1.22.2
- setproctitle==1.3.2
- six==1.16.0
- smart-open==6.3.0
- smmap==5.0.0
- soupsieve==2.4.1
- sqlalchemy==2.0.16
- sweeps==0.2.0
- sympy==1.12
- tabulate==0.9.0
- threadpoolctl==3.1.0
- tokenizers==0.13.3
- torch==2.0.1
- torch-cluster==1.6.1
- torch-geometric==2.3.1
- torch-scatter==2.1.1
- torch-sparse==0.6.17
- torch-spline-conv==1.2.2
- torchaudio==2.0.2
- torchmetrics==0.11.4
- torchvision==0.15.2
- tqdm==4.65.0
- transformers==4.29.0
- typing-extensions==4.5.0
- tzdata==2023.3
- umap-learn==0.5.3
- urllib3==1.26.15
- wandb==0.15.2
- yarl==1.9.2
- zipp==3.15.0