From d9b05b5897e9cd33b74715da0754f4806f90b1fa Mon Sep 17 00:00:00 2001
From: Ruben Vorderman <r.h.p.vorderman@lumc.nl>
Date: Mon, 6 Jul 2020 10:32:31 +0200
Subject: [PATCH] 2GB per thread is sufficient
---
bwa.wdl | 4 ++--
1 file changed, 2 insertions(+), 2 deletions(-)
diff --git a/bwa.wdl b/bwa.wdl
index 0c35bf3..4a0e86a 100644
--- a/bwa.wdl
+++ b/bwa.wdl
@@ -30,7 +30,7 @@ task Mem {
Int threads = 4
Int sortThreads = 1
- Int sortMemoryPerThreadGb = 4
+ Int sortMemoryPerThreadGb = 2
Int compressionLevel = 1
# BWA needs slightly more memory than the size of the index files (~10%). Add a margin for safety here.
Int memoryGb = 1 + ceil(size(bwaIndex.indexFiles, "G") * 1.2) + sortMemoryPerThreadGb * sortThreads
@@ -95,7 +95,7 @@ task Kit {
Int threads = 4
Int sortThreads = 1
- Int sortMemoryPerThreadGb = 4
+ Int sortMemoryPerThreadGb = 2
Int compressionLevel = 1
# BWA needs slightly more memory than the size of the index files (~10%). Add a margin for safety here.
Int memoryGb = 1 + ceil(size(bwaIndex.indexFiles, "G") * 1.2) + sortMemoryPerThreadGb * sortThreads
--
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