From f40cfefc0899fd6bb6adc300142ca6c3a35573ff Mon Sep 17 00:00:00 2001
From: Rike <friederike.hanssen@qbic.uni-tuebingen.de>
Date: Thu, 12 May 2022 16:47:17 +0200
Subject: [PATCH] leftover fixes from refactoring

---
 modules/gatk4/getpileupsummaries/main.nf | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

diff --git a/modules/gatk4/getpileupsummaries/main.nf b/modules/gatk4/getpileupsummaries/main.nf
index 67e9276c..1c056170 100644
--- a/modules/gatk4/getpileupsummaries/main.nf
+++ b/modules/gatk4/getpileupsummaries/main.nf
@@ -40,7 +40,7 @@ process GATK4_GETPILEUPSUMMARIES {
         --variant $variants \\
         --output ${prefix}.pileups.table \\
         $reference_command \\
-        $sites_command \\
+        $interval_command \\
         --tmp-dir . \\
         $args