environment.yml

channels:
- conda-forge

dependencies:
- python~=3.9.6
- pip>=22.0.4
# - pycairo>=1.21.0
- anndata>=0.7.4
- numpy>=1.17.0
- matplotlib-base>=3.1.2
- pandas>=0.21
- scipy>=1.4
- seaborn
- h5py>=3
- tqdm
# - statsmodels~=0.13.1
- patsy
- networkx>=2.3
- natsort
- joblib
- numba>=0.41.0
- umap-learn>=0.3.10
- packaging
- setuptools-scm
- black>=20.8b1
- docutils
- sphinx<4.2,>=4.1
- sphinx_rtd_theme>=0.3.1
# - python-igraph~=0.9.8
- leidenalg
- louvain!=0.6.2,>=0.6
# - scikit-misc~=0.1.4
- pytest>=4.4
- pytest-nunit
- dask-core!=2.17.0
- fsspec
- zappy
- zarr
- profimp
- flit-core
- ipywidgets

- pip:
  - flit
  - session-info
  - scanpydoc<0.7.6,>=0.7.4
  - torch==1.11.0
  - tensorboard
  # - torch-geometric
  - scikit-learn
  - scikit-misc>=0.1.3
  - scanpy>=1.7.2
  - ray
  - notebook
name: ogenki

# pip install torch-scatter torch-sparse torch-cluster torch-spline-conv torch-geometric -f https://data.pyg.org/whl/torch-1.11.0+cpu.html