pathml/environment.yml at master · Dana-Farber-AIOS/pathml · GitHub

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name: pathml

channels:
    - conda-forge
    - pytorch

dependencies:
    - python>=3.10
    - pip==25.0.1
    - numpy>=1.26.4,<2
    - scipy>=1.12,<2
    - scikit-image<=0.22.0
    - matplotlib>=3.8.0
    - openjdk<=18.0.0
    - h5py==3.10.0
    - dask<=2023.12.1
    - pydicom==3.0.2
    - pytest==7.4.3
    - pre-commit<=3.6.0
    - coverage==7.4.0
    - networkx<=3.2.1
    - pip:
        - -r requirements/requirements_torch.txt
        # - coverage==7.2.7
        - numba>=0.59
        - python-bioformats==4.1.0
        - python-javabridge==4.0.4
        - protobuf==4.25.1
        - onnx==1.21.0
        - onnxruntime>=1.17.0,<1.18
        - opencv-contrib-python==4.8.1.78
        - openslide-python==1.3.1
        - scanpy==1.9.6
        - anndata>=0.7.6,<=0.10.3
        - tqdm==4.66.3
        - loguru==0.7.2
        - pandas<=2.1.4
        - torch-geometric==2.3.1
        - jpype1>=1.5.0