-f https://download.pytorch.org/whl/cpu/torch_stable.html
-f https://data.pyg.org/whl/torch-2.0.1+cpu.html
pandas
numpy
lmdb
# python-lmdb
# git+https://github.com/jnwatson/py-lmdb.git
git+https://github.com/microsoft/protein-sequence-models.git
mlflow
scikit-learn
seaborn
blosum
matplotlib
fair-esm
biotite>=0.40,<1.0.0
tqdm
# git+https://github.com/HeliXonProtein/OmegaFold.git
mdanalysis
pdb-tools
evodiff
torch==2.0.1
torchvision
torch_geometric
torch_scatter
py3Dmol
# jax[cpu]==0.4.13
colabfold[alphafold-minus-jax]@git+https://github.com/sokrypton/ColabFold