From a3c21103055d35fe767f5c00abf4b19165068d7e Mon Sep 17 00:00:00 2001
From: Peter van 't Hof <p.j.van_t_hof@lumc.nl>
Date: Tue, 17 May 2016 13:50:46 +0200
Subject: [PATCH] Fixed output
---
.../scala/nl/lumc/sasc/biopet/extensions/GtfToGenePred.scala | 2 +-
1 file changed, 1 insertion(+), 1 deletion(-)
diff --git a/biopet-extensions/src/main/scala/nl/lumc/sasc/biopet/extensions/GtfToGenePred.scala b/biopet-extensions/src/main/scala/nl/lumc/sasc/biopet/extensions/GtfToGenePred.scala
index 631c76fe0..e6ae05b91 100644
--- a/biopet-extensions/src/main/scala/nl/lumc/sasc/biopet/extensions/GtfToGenePred.scala
+++ b/biopet-extensions/src/main/scala/nl/lumc/sasc/biopet/extensions/GtfToGenePred.scala
@@ -36,5 +36,5 @@ class GtfToGenePred(val root: Configurable) extends BiopetCommandLineFunction {
conditional(simple, "-simple") +
conditional(geneNameAsName2, "-geneNameAsName2") +
repeat(inputGtfs) +
- (if (outputAsStsout) "" else " > " + required(outputGenePred))
+ (if (outputAsStsout) required("/dev/stdout") else required(outputGenePred))
}
--
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