From eddc374c338d49b28a2ba7e897705590d84f2417 Mon Sep 17 00:00:00 2001
From: Laurent Modolo <laurent.modolo@ens-lyon.fr>
Date: Wed, 17 Feb 2021 10:08:37 +0100
Subject: [PATCH] gatk3: fix variant calling
---
src/nf_modules/gatk3/main.nf | 2 +-
1 file changed, 1 insertion(+), 1 deletion(-)
diff --git a/src/nf_modules/gatk3/main.nf b/src/nf_modules/gatk3/main.nf
index 5de8637c..3eca0880 100644
--- a/src/nf_modules/gatk3/main.nf
+++ b/src/nf_modules/gatk3/main.nf
@@ -10,7 +10,7 @@ process variant_calling {
tuple val(file_id), path(bam), path(bai)
tuple val(ref_id), path(fasta), path(fai), path(dict)
output:
- tuple val(file_id), "*.vcf", emit: vcf
+ tuple val(file_id), path("*.vcf"), emit: vcf
script:
"""
--
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