From c75f1dda6a593b6fbe3bf60d2ec0b11f9eb57b43 Mon Sep 17 00:00:00 2001
From: Laurent Modolo <laurent.modolo@ens-lyon.fr>
Date: Thu, 15 Apr 2021 09:44:25 +0200
Subject: [PATCH] nf_modules: fix bug in variable names for samtools and bwa
---
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 a50a75ee..f467287f 100644
--- a/src/nf_modules/samtools/main.nf
+++ b/src/nf_modules/samtools/main.nf
@@ -23,7 +23,7 @@ samtools faidx ${params.index_fasta} ${fasta}
}
params.filter_bam_quality_threshold = 30
-params.filter_bam_quality = "-q ${filter_bam_quality_threshold}"
+params.filter_bam_quality = "-q ${params.filter_bam_quality_threshold}"
params.filter_bam_quality_out = ""
process filter_bam_quality {
container = "${container_url}"
--
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