Changed to same strategy for spikein (c5dccdbb) · Commits · Chaos / Cutandrun

conf/modules.config

+1 −1

Original line number	Diff line number	Diff line
		@@ -193,7 +193,7 @@ if(params.run_alignment) {
		}

		withName: '.*:ALIGN_BOWTIE2:BOWTIE2_SPIKEIN_ALIGN' {
		ext.args = '--end-to-end --very-sensitive --no-overlap --no-dovetail --no-mixed --no-discordant --phred33 -I 10 -X 700'
		ext.args = { params.skip_trimming ? '--end-to-end --very-sensitive --no-overlap --no-dovetail --no-mixed --no-discordant --phred33 -I 10 -X 700' : '--local --very-sensitive --no-overlap --no-dovetail --no-mixed --no-discordant --phred33 -I 10 -X 700' }
		ext.prefix = { "${meta.id}.spikein" }
		publishDir = [
		[