From 4fa36287fc65c935a90a5f6ebdf31d454f15b6a3 Mon Sep 17 00:00:00 2001 From: Matthias Zepper Date: Thu, 22 Feb 2024 17:50:42 +0100 Subject: [PATCH] Make -a the default for bcftools concat. --- conf/modules/post_variant_calling.config | 1 + 1 file changed, 1 insertion(+) diff --git a/conf/modules/post_variant_calling.config b/conf/modules/post_variant_calling.config index ee29a656ce..3354d4671f 100644 --- a/conf/modules/post_variant_calling.config +++ b/conf/modules/post_variant_calling.config @@ -17,6 +17,7 @@ process { withName: 'GERMLINE_VCFS_CONCAT'{ + ext.args = { "-a" } ext.when = { params.concatenate_vcfs } publishDir = [ //specify to avoid publishing, overwritten otherwise