cellprofiler_env.yml

name: alsf_cp_env

channels:
- conda-forge

dependencies:
# this is restricted to Python 3.9 at this time due to other conflicts
- conda-forge::python=3.9
- conda-forge::ipykernel
- conda-forge::jupyterlab
- conda-forge::nbconvert=6.4.4
- conda-forge::pip
- conda-forge::pyyaml
- conda-forge::pandas
- conda-forge::mysqlclient
- conda-forge::openjdk
- conda-forge::scikit-image
- conda-forge::scikit-learn
- conda-forge::mahotas
- conda-forge::gtk2
- conda-forge::typing-extensions
# these are strict because that is how it is on the CellProfiler wiki (Jinja updated for nbconvert)
- conda-forge::Jinja2=3.0.3
- conda-forge::inflect=5.3.0
- conda-forge::wxpython=4.2.0
- conda-forge::sentry-sdk=0.18.0
- pip:
    - cellprofiler==4.2.8
    - git+https://github.com/broadinstitute/pe2loaddata.git@4c9aee0b9fbe74bb7308b1114dabf2895113552d