From cf652ee34d5c39e5b841dcc048c457dad332624a Mon Sep 17 00:00:00 2001
From: Ruben Vorderman <r.h.p.vorderman@lumc.nl>
Date: Mon, 18 May 2020 11:15:49 +0200
Subject: [PATCH] hisat2.wdl
---
hisat2.wdl | 2 +-
1 file changed, 1 insertion(+), 1 deletion(-)
diff --git a/hisat2.wdl b/hisat2.wdl
index aafa333..b65b2da 100644
--- a/hisat2.wdl
+++ b/hisat2.wdl
@@ -56,7 +56,7 @@ task Hisat2 {
--rg 'LB:~{library}' \
--rg 'PL:~{platform}' \
~{true="--dta" false="" downstreamTranscriptomeAssembly} \
- --summary-file ~{summaryFilePath} \
+ --new-summary ~{summaryFilePath} \
| samtools sort > ~{outputBam}
samtools index ~{outputBam} ~{bamIndexPath}
}
--
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