From 3e3cbed9818e7643eef3829c5fa29df6d1c79487 Mon Sep 17 00:00:00 2001
From: Peter van 't Hof <p.j.van_t_hof@lumc.nl>
Date: Sat, 1 Aug 2015 14:49:15 +0200
Subject: [PATCH] Changed name
---
.../main/scala/nl/lumc/sasc/biopet/tools/VepNormalizer.scala | 4 ++--
1 file changed, 2 insertions(+), 2 deletions(-)
diff --git a/public/biopet-framework/src/main/scala/nl/lumc/sasc/biopet/tools/VepNormalizer.scala b/public/biopet-framework/src/main/scala/nl/lumc/sasc/biopet/tools/VepNormalizer.scala
index 5878d03f3..8543b7706 100644
--- a/public/biopet-framework/src/main/scala/nl/lumc/sasc/biopet/tools/VepNormalizer.scala
+++ b/public/biopet-framework/src/main/scala/nl/lumc/sasc/biopet/tools/VepNormalizer.scala
@@ -45,7 +45,7 @@ class VepNormalizer(val root: Configurable) extends ToolCommandFuntion {
var inputVCF: File = null
@Output(doc = "Output VCF", shortName = "OutputFile", required = true)
- var outputVCF: File = null
+ var outputVcf: File = null
var mode: String = config("mode", default = "explode")
var doNotRemove: Boolean = config("donotremove", default = false)
@@ -54,7 +54,7 @@ class VepNormalizer(val root: Configurable) extends ToolCommandFuntion {
override def commandLine = super.commandLine +
required("-I", inputVCF) +
- required("-O", outputVCF) +
+ required("-O", outputVcf) +
required("-m", mode) +
conditional(doNotRemove, "--do-not-remove")
}
--
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