README.md

SLURM configuration profile

This is a generic SLURM configuration profile for Snakemake workflow. To use it, update the slurm_account and slurm_partition in the config.yaml file with your compute account and partition on your HPC cluster.

Then choose whether you want to Snakemake to use apptainer or conda to handle software dependencies by setting the --sdm apptainer or --sdm conda flag:

snakemake --sdm apptainer --profile slurm

or

snakemake --sdm conda --profile slurm