From d38513770fe564735e9f98dc0d80c07e137c3eee Mon Sep 17 00:00:00 2001
From: Peter van 't Hof <p.j.van_t_hof@lumc.nl>
Date: Fri, 25 Mar 2016 07:56:57 +0100
Subject: [PATCH] Changed sample ID
---
.../src/main/scala/nl/lumc/sasc/biopet/tools/GensToVcf.scala | 2 +-
1 file changed, 1 insertion(+), 1 deletion(-)
diff --git a/public/biopet-tools/src/main/scala/nl/lumc/sasc/biopet/tools/GensToVcf.scala b/public/biopet-tools/src/main/scala/nl/lumc/sasc/biopet/tools/GensToVcf.scala
index 6b989655a..5bc7ba8fc 100644
--- a/public/biopet-tools/src/main/scala/nl/lumc/sasc/biopet/tools/GensToVcf.scala
+++ b/public/biopet-tools/src/main/scala/nl/lumc/sasc/biopet/tools/GensToVcf.scala
@@ -50,7 +50,7 @@ object GensToVcf extends ToolCommand {
val argsParser = new OptParser
val cmdArgs = argsParser.parse(args, Args()).getOrElse(throw new IllegalArgumentException)
- val samples = Source.fromFile(cmdArgs.sampleFile).getLines().toArray.drop(2).map(_.split("\t").head)
+ val samples = Source.fromFile(cmdArgs.sampleFile).getLines().toArray.drop(2).map(_.split("\t").take(2).mkString("_"))
val metaLines = new util.HashSet[VCFHeaderLine]()
metaLines.add(new VCFFormatHeaderLine("GT", 1, VCFHeaderLineType.String, ""))
--
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