codex_preprocessing/env_cuda12.yml at main · ajortizg/codex_preprocessing · GitHub

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name: codex_prep
channels:
  - bioconda
  - nvidia
  - conda-forge
dependencies:
  - python>=3.11
  - pip
  - numpy
  - pandas
  - pillow
  - scipy
  - tensorflow[and-cuda]
  - scikit-learn
  - tensorboard
  - tqdm
  - tifffile<=2025.1.10
  - scikit-image<=0.24.0
  - PyWavelets
  - openpyxl
  - pyjnius
  - blessed
  - networkx
  - pip:
    - tf_keras
    - hydra-core
    - hydra_colorlog
    - flowdec
    - ashlar
    - jax
    - jaxlib
    - hyperactive==4.4.0
    - pydantic<3.0.0
    - rich
    - tabulate
    - cucim-cu12
    - cupy-cuda12x
    # - dask>=2024.10.0,<=2024.11.2
    # - dask-image
    - torch
    - torchvision
    - opencv-python-headless
    - spatialdata>=0.6.0
    # - git+https://github.com/fbcotter/pytorch_wavelets