Welcome to the CCDL Repo!!

This will be a simple, and fun pipeline to run.

To begin, start up your conda virtual environment:

conda env create -f environment.yml

conda activate ccdl or source activate ccdl

To run the pipeline:

snakemake get_data then snakemake targets -j 100

This might take some time, and a lot of memory, so be patient

When you want to deactivate your environment, simply type: conda deactivate or source deactivate

The conda docs are super helpful!