/2019-snakemake-slurm

A simple snakefile to play with slurm foo

Primary LanguagePython

2019-snakemake-slurm

This is @ctb's attempt to learn how to use snakemake+SLURM on farm, his UC Davis cluster.

submit like so:

snakemake --cluster "sbatch -t {cluster.time} -p {cluster.partition} -N {cluster.nodes}" --cluster-config cluster_conf/farm_config.yml --jobs 2 --latency-wait=15 --use-conda

the only real trick on farm seems to be to provide a latency wait time of 15s instead of 5 seconds.

HT to @bluegenes for her tutorial!