environment.yml

name: segger-env
channels:
  - conda-forge
  - defaults
dependencies:
  - python=3.10
  - pytorch>=2.0.0
  - numpy>=1.21.0
  - pandas>=1.3.0
  - scipy>=1.7.0
  - matplotlib>=3.4.0
  - seaborn>=0.11.0
  - tqdm>=4.61.0
  - torchvision>=0.10.0
  - lightning>=1.9.0
  - torchmetrics>=0.5.0
  - scanpy>=1.9.3
  - squidpy>=1.2.0
  - adjustText>=0.8
  - scikit-learn>=0.24.0
  - geopandas>=0.9.0
  - shapely>=1.7.0
  - path>=17.0.0
  - pyarrow>=17.0.0
  - pip
  - pip:
      - torch-scatter>=2.1.2
      - torch-sparse>=0.6.18
      - torch-cluster>=1.6.3
      - torch-geometric>=2.2.0
  - optional:
    - cudf>=21.08
    - cuml>=21.08
    - cugraph>=21.08
    - cuspatial>=21.08
    - faiss-cpu>=1.7.0
    - faiss-gpu>=1.7.0
  - optional:
    - multiprocessing
  - optional:
    - pytest
    - black
    - flake8
    - pre-commit
    - twine>=4.0.2
    - docutils>=0.8,!=0.18.*,!=0.19.*
    - sphinx>=4.1
    - sphinx-book-theme>=1.0.0
    - myst-nb
    - myst-parser
    - sphinxcontrib-bibtex>=1.0.0
    - sphinx-autodoc-typehints
    - sphinx_rtd_theme
    - sphinxext-opengraph
    - sphinx-copybutton
    - sphinx-design
    - sphinx-hoverxref
    - ipykernel
    - ipython
    - pandas
    - pytest
    - coverage