Commit 253e448e authored by Davis McCarthy's avatar Davis McCarthy
Browse files

Tweaking snakefile

parent ba662a45
......@@ -8,12 +8,16 @@ April 2017
Last updated: 17 May 2019
Run on a cluster with a command like:
snakemake --jobs 1000 --latency-wait 30 --cluster 'bsub -R "rusage[mem=32000]" -M 32000 -o ./snake_logs -e ./snake_logs'
snakemake --jobs 8 --latency-wait 30 --cluster 'bsub -R "rusage[mem=32000]" -M 32000 -o ./snake_logs -e ./snake_logs'
snakemake --use-singularity --jobs 8
"""
import glob
import os
import re
from pathlib import Path
Path('logs').mkdir(parents=True, exist_ok=True)
SAMPLES_LONG = glob.glob('data/fastq/*.fastq.gz')
#SAMPLES_LONG = [re.sub('.*lane[123]+_', '', w) for w in SAMPLES_LONG]
......
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