environment.yml

name: cellvit
channels:
  - conda-forge
  - defaults
dependencies:
  - python=3.9.7
  - libtiff=4.5.0
  - openslide=3.4.1
  - pip=23.0=pyhd8ed1ab_0
  #- python-javabridge
  #- gcc

  # - pip:
  #   - cmake
  #   - mako==1.2.4
  #   - csbdeep==0.7.4
  #   - h5py==3.9.0
  #   - imageio==2.31.1
  #   - kaleido==0.2.1
  #   - keras==2.12.0
  #   - natsort==8.4.0
  #   - stardist==0.8.5
  #   - pyjwt==2.6.0
  #   - albumentations==1.3.0
  #   - einops==0.6.1
  #   - future==0.18.2
  #   - geojson==3.0.0
  #   - jupyterlab==4.0.2
  #   - ipython-genutils==0.2.0
  #   - keras==2.12.0
  #   - matplotlib==3.7.1
  #   - numpy>1.22,<1.24
  #   - opencv_python_headless==4.5.4.58
  #   - openslide_python==1.2.0
  #   - pandarallel==1.6.5
  #   - pandas==1.5.3
  #   - Pillow==9.5.0
  #   - pydantic==1.10.4
  #   - PyYAML==6.0
  #   - rasterio==1.3.5.post1
  #   - schema==0.7.5
  #   - scikit-image==0.19.3
  #   - scikit-learn==1.2.1
  #   - scikit-survival==0.21.0
  #   - scipy<1.8.2
  #   - seaborn==0.12.2
  #   - SimpleITK==2.2.1
  #   - Shapely==1.8.5.post1
  #   - sqlalchemy==2.0.17
  #   - tabulate==0.9.0
  #   #- tensorflow==2.12.0
  #   - tensorflow==2.13.0
  #   - tqdm==4.65.0
  #   - ujson==5.8.0
  #   - wandb==0.15.4
  #   - torchinfo==1.8.0
  #   - torchmetrics==0.11.4
  #   - flake8==6.0.0
  #   - flake8-html==0.4.3
  #   - pre-commit==3.0.3
  #   - black==23.1.0
  #   - genbadge==1.1.0
  #   - histolab==0.6.0