From 10c14902650bcb7f448b660938581d6bc8ee5500 Mon Sep 17 00:00:00 2001
From: lquayle88 <drlquayle@gmail.com>
Date: Sat, 1 Oct 2022 23:15:13 +0100
Subject: [PATCH] Increased memory and time for GATK4_MARKDUPLICATES in
 sbc_sharc.config for sarek

---
 conf/pipeline/sarek/sbc_sharc.config | 1 +
 1 file changed, 1 insertion(+)

diff --git a/conf/pipeline/sarek/sbc_sharc.config b/conf/pipeline/sarek/sbc_sharc.config
index 4ddf2ba..570284d 100644
--- a/conf/pipeline/sarek/sbc_sharc.config
+++ b/conf/pipeline/sarek/sbc_sharc.config
@@ -76,6 +76,7 @@ process {
 
     withName:'GATK4_MARKDUPLICATES' {
         memory  = { check_max( 20.GB * task.attempt, 'memory' ) }
+        time    = { check_max( 8.h * task.attempt, 'time' ) }
     }
 
     withName:'FREEBAYES|SAMTOOLS_STATS|SAMTOOLS_INDEX|UNZIP' {