From 43a4bc76577b24ef008ad9bcdeb772d8f284621d Mon Sep 17 00:00:00 2001
From: Peter van 't Hof <p.j.van_t_hof@lumc.nl>
Date: Wed, 21 Oct 2015 12:46:46 +0200
Subject: [PATCH] Fix sample and library flag
---
.../nl/lumc/sasc/biopet/pipelines/shiva/ShivaTrait.scala | 4 ++--
1 file changed, 2 insertions(+), 2 deletions(-)
diff --git a/public/shiva/src/main/scala/nl/lumc/sasc/biopet/pipelines/shiva/ShivaTrait.scala b/public/shiva/src/main/scala/nl/lumc/sasc/biopet/pipelines/shiva/ShivaTrait.scala
index dafb2e1cc..7d8a04d4f 100644
--- a/public/shiva/src/main/scala/nl/lumc/sasc/biopet/pipelines/shiva/ShivaTrait.scala
+++ b/public/shiva/src/main/scala/nl/lumc/sasc/biopet/pipelines/shiva/ShivaTrait.scala
@@ -198,8 +198,8 @@ trait ShivaTrait extends MultiSampleQScript with SummaryQScript with Reference {
})
variantcalling.foreach(vc => {
- vc.sampleId = Some(libId)
- vc.libId = Some(sampleId)
+ vc.sampleId = Some(sampleId)
+ vc.libId = Some(libId)
vc.outputDir = new File(libDir, "variantcalling")
if (preProcessBam.isDefined) vc.inputBams = preProcessBam.get :: Nil
else vc.inputBams = bamFile.get :: Nil
--
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