From 6fa1c8089afe83e612dbc14e4b85f277166c4a2b Mon Sep 17 00:00:00 2001
From: Nicolas Vannieuwkerke <nicolas.vannieuwkerke@ugent.be>
Date: Fri, 13 May 2022 10:03:20 +0200
Subject: [PATCH] Added memory allocation to VCFeval

---
 modules/rtgtools/vcfeval/main.nf | 3 ++-
 1 file changed, 2 insertions(+), 1 deletion(-)

diff --git a/modules/rtgtools/vcfeval/main.nf b/modules/rtgtools/vcfeval/main.nf
index 1bad4231..27a488f7 100644
--- a/modules/rtgtools/vcfeval/main.nf
+++ b/modules/rtgtools/vcfeval/main.nf
@@ -35,12 +35,13 @@ process RTGTOOLS_VCFEVAL {
     def eval_regions = evaluation_regions ? "--evaluation-regions=$evaluation_regions" : ""
     def truth_index = truth_vcf_tbi ? "" : "rtg index $truth_vcf"
     def query_index = query_vcf_tbi ? "" : "rtg index $query_vcf"
+    def avail_mem = task.memory.toGiga() + "G"
 
     """
     $truth_index
     $query_index
 
-    rtg vcfeval \\
+    rtg RTG_MEM=$avail_mem vcfeval \\
         $args \\
         --baseline=$truth_vcf \\
         $bed_regions \\