environment.yml

# Need to run these exact commands to get the env created correctly;  https://bioconda.github.io/#usage
# conda create -y -n nextflow
# conda activate nextflow
# conda config --env --add channels defaults
# conda config --env --add channels bioconda
# conda config --env --add channels conda-forge
# conda config --env --set channel_priority strict
# conda env update --name nextflow --file environment.yml

# NOTE: if you have trouble getting it to install, then try removing the nf-core modules

# NOTE: might need to update base conda;
# $ conda update -n base -c defaults conda

# NOTE: alternative way to try installing the env;

# easier command to create the env that might not work because it sits spinning trying to resolve the packages forever when nf-core is included
# $ conda env create -f environment.yml -n nextflow
# $ conda activate nextflow

# TODO: add nf-test https://code.askimed.com/nf-test/installation/
# $ wget -qO- https://code.askimed.com/install/nf-test | bash

name: nextflow
channels:
  - conda-forge
  - bioconda
  - anaconda
  - defaults
dependencies:
  - python>=3.11
  - nextflow>=23
  # - graphviz
  - pytest-workflow>=1.6 # make sure to get the version from conda-forge !!
  - nf-core>=2.7 # this causes the conda install to take a looooooong time unless the strict channel priority is used
  # - prettier