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Commit f841b758 authored by Peter van 't Hof's avatar Peter van 't Hof
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Fix shiva variantcalling

parent 9461ff47
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shiva/src/main/scala/nl/lumc/sasc/biopet/pipelines/shiva/variantcallers/HaplotypeCallerAllele.scala
View file @ f841b758
......@@ -28,7 +28,7 @@ class HaplotypeCallerAllele(val root: Configurable) extends Variantcaller {
val name = "haplotypecaller_allele"
protected def defaultPrio = 5
val alleles: File = config("input_alleles")
lazy val alleles: File = config("input_alleles")
def biopetScript() {
val hc = gatk.HaplotypeCaller(this, inputBams.values.toList, outputFile)
......
shiva/src/main/scala/nl/lumc/sasc/biopet/pipelines/shiva/variantcallers/UnifiedGenotyperAllele.scala
View file @ f841b758
......@@ -27,7 +27,7 @@ class UnifiedGenotyperAllele(val root: Configurable) extends Variantcaller {
val name = "unifiedgenotyper_allele"
protected def defaultPrio = 9
val alleles: File = config("input_alleles")
lazy val alleles: File = config("input_alleles")
def biopetScript() {
val ug = gatk.UnifiedGenotyper(this, inputBams.values.toList, outputFile)
......
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