sarek test

sarek/run-k8s.sh

@@ -0,0 +1,9 @@
+#!/bin/sh
+SIZE=1
+if [ "$#" -eq 1 ]; then
+  SIZE=$1
+fi
+
+cp samplesheet${SIZE}.csv /workspace/launch/samplesheet.csv
+cp *.fastq.gz /workspace/launch/.
+time nextflow run -c nextflow-k8s.config  nf-core/sarek -r 3.9.0 -profile docker --genome GRCm38 --input samplesheet.csv --outdir out --skip_tools multiqc