From d73d2e9456646709debb11b709245ff74c3e2ec6 Mon Sep 17 00:00:00 2001
From: Peter van 't Hof <p.j.van_t_hof@lumc.nl>
Date: Fri, 1 Apr 2016 16:40:09 +0200
Subject: [PATCH] Fixed chr vcf files
---
.../scala/nl/lumc/sasc/biopet/pipelines/gwastest/GwasTest.scala | 2 +-
1 file changed, 1 insertion(+), 1 deletion(-)
diff --git a/public/gwas-test/src/main/scala/nl/lumc/sasc/biopet/pipelines/gwastest/GwasTest.scala b/public/gwas-test/src/main/scala/nl/lumc/sasc/biopet/pipelines/gwastest/GwasTest.scala
index bfdd64344..9035928e8 100644
--- a/public/gwas-test/src/main/scala/nl/lumc/sasc/biopet/pipelines/gwastest/GwasTest.scala
+++ b/public/gwas-test/src/main/scala/nl/lumc/sasc/biopet/pipelines/gwastest/GwasTest.scala
@@ -88,7 +88,7 @@ class GwasTest(val root: Configurable) extends QScript with BiopetQScript with R
contig -> cvChr.outputFile
}
add(cvTotal)
- (cvTotal.outputFile, Map[String, File]())
+ (cvTotal.outputFile, chrGens)
}
val snpTests = BedRecordList.fromReference(referenceFasta())
--
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