From 7d5952d13ae4187139f09bbd3bd724005d60e0b0 Mon Sep 17 00:00:00 2001
From: DavyCats <davycats.dc@gmail.com>
Date: Fri, 10 Aug 2018 13:04:40 +0200
Subject: [PATCH] add sequence dict to sortVcf
---
picard.wdl | 2 ++
1 file changed, 2 insertions(+)
diff --git a/picard.wdl b/picard.wdl
index 4132754..87243a1 100644
--- a/picard.wdl
+++ b/picard.wdl
@@ -386,6 +386,7 @@ task SortVcf {
Array[File]+ vcfFiles
String outputVcf
+ File? sequenceDict
Int memory = 4
Float memoryMultiplier = 3.0
@@ -401,6 +402,7 @@ task SortVcf {
~{toolCommand} \
SortVcf \
I=~{sep=" I=" vcfFiles} \
+ ~{"SEQUENCE_DICTIONARY=" + sequenceDict} \
O=outputVcf
}
--
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