From 30bc832d8a2a914427cd3129b26f81fe70f4dd77 Mon Sep 17 00:00:00 2001
From: Laurent Modolo <laurent.modolo@ens-lyon.fr>
Date: Mon, 28 Feb 2022 15:33:24 +0100
Subject: [PATCH] bedtools: change bg file to bed file
---
src/nf_modules/bedtools/main.nf | 4 ++--
1 file changed, 2 insertions(+), 2 deletions(-)
diff --git a/src/nf_modules/bedtools/main.nf b/src/nf_modules/bedtools/main.nf
index 9400abf4..674a9621 100644
--- a/src/nf_modules/bedtools/main.nf
+++ b/src/nf_modules/bedtools/main.nf
@@ -109,13 +109,13 @@ process bam_to_bedgraph {
tuple val(bam_id), path(bam)
output:
- tuple val(bam_id), path("*.bg"), emit: bedgraph
+ tuple val(bam_id), path("*.bed"), emit: bed
script:
"""
bedtools genomecov \
${params.bam_to_bedgraph} \
-ibam ${bam} \
- -bg > ${bam.simpleName}.bg
+ -bg > ${bam.simpleName}.bed
"""
}
--
GitLab