From a7358e47a5159827491b3baee44592056bb896d9 Mon Sep 17 00:00:00 2001
From: Laurent Modolo <laurent.modolo@ens-lyon.fr>
Date: Tue, 2 Nov 2021 12:07:49 +0100
Subject: [PATCH] samtools: rename flagstat log for multiqc
---
src/nf_modules/samtools/main.nf | 2 +-
1 file changed, 1 insertion(+), 1 deletion(-)
diff --git a/src/nf_modules/samtools/main.nf b/src/nf_modules/samtools/main.nf
index 58f7e8af..b9dcb72d 100644
--- a/src/nf_modules/samtools/main.nf
+++ b/src/nf_modules/samtools/main.nf
@@ -272,7 +272,7 @@ process stats_bam {
tuple val(file_id), path("*.tsv"), emit: tsv
script:
"""
-samtools flagstat -@ ${task.cpus} ${params.stats_bam} -O tsv ${bam} > ${bam.simpleName}_stats.tsv
+samtools flagstat -@ ${task.cpus} ${params.stats_bam} -O tsv ${bam} > ${bam.simpleName}.flagstat.txt
"""
}
--
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