environment.yml

name: jump_sc
channels:
  - conda-forge
dependencies:
  - conda-forge::python=3.9
  - conda-forge::pip
  # restrict to less than Pandas 2.0 as there are
  # many conflicts with other dependencies
  - conda-forge::pandas<2.0
  - conda-forge::numpy
  - conda-forge::matplotlib
  # Version to allow Roshan's sklearn models to
  # predict probabilities correctly
  - conda-forge::scikit-learn=1.1.1
  - conda-forge::scipy=1.8.1
  - conda-forge::pathlib2
  - conda-forge::scikit-learn
  - conda-forge::requests
  - conda-forge::seaborn
  - conda-forge::scikit-posthocs
  # used for managing jupyter environments
  - conda-forge::notebook
  - conda-forge::jupyterlab
  - conda-forge::ipykernel
  - conda-forge::ipython
  # quality of life for jupyter environments
  # ----------------------------------------
  # automatically converts .ipynb to .py file on save within jupyter lab
  - conda-forge::jupytext
  # dependency of jupyterlab_code_formatter
  - conda-forge::black
  # dependency of jupyterlab_code_formatter
  - conda-forge::isort
  # used for formatting code within .ipynb files
  - conda-forge::jupyterlab_code_formatter
  - pip:
      - git+https://github.com/cytomining/pycytominer.git@8e3c28d3b81efd2c241d4c792edfefaa46698115
      - lmoments3
      - cytotable==0.0.10
      - cloudpathlib