environment.yml

# Use this file to construct an environment for working
# with the PyImageJ tutorial notebooks in the doc folder.
#
# First, install miniforge3:
#
#   https://github.com/conda-forge/miniforge#miniforge3
#
# Then run:
#
#   mamba env create
#   mamba activate pyimagej
#
# It includes the dependencies needed for using PyImageJ, and for
# executing the Jupyter notebooks in the documentation, but not tools
# for developer-related actions like running automated tests (pytest),
# linting the code (black), and generating the API documentation (sphinx).
# If you want an environment including these tools, use dev-environment.yml.

name: pyimagej
channels:
  - conda-forge
dependencies:
  - python >= 3.8
  # Project dependencies
  - imglyb >= 2.1.0
  - jgo >= 1.0.3
  - jpype1 >= 1.3.0
  - labeling >= 0.1.14
  - numpy
  - openjdk=11
  - scyjava >= 1.8.0
  - xarray
  # Optional dependencies
  - matplotlib-base
  # Notebook dependencies
  - ipywidgets
  - jupyter_contrib_nbextensions
  - notebook < 7.0.0
  - pooch # for scikit image
  - scikit-image
  # Project from source
  - pip
  - pip:
    - -e .