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Commit 2a998e22 authored by Peter van 't Hof's avatar Peter van 't Hof
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Fix on output files

parent 9aad81a3
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biopet-framework/src/main/scala/nl/lumc/sasc/biopet/pipelines/gatk/GatkVariantcalling.scala
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......@@ -135,7 +135,7 @@ class GatkVariantcalling(val root: Configurable) extends QScript with BiopetQScr
mergBuffer += ("9.raw" -> scriptOutput.rawFilterVcfFile)
if (useAllelesOption.get) {
val mergeAlleles = MergeAlleles(this, mergeList.toList, outputDir + "raw.allele__temp_only.vcf.gz.tbi")
val mergeAlleles = MergeAlleles(this, mergeList.toList, outputDir + "raw.allele__temp_only.vcf.gz")
add(mergeAlleles, isIntermediate = true)
if (useHaplotypecaller.get) {
......
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