diff --git a/public/basty/src/main/scala/nl/lumc/sasc/biopet/pipelines/basty/BastyTrait.scala b/public/basty/src/main/scala/nl/lumc/sasc/biopet/pipelines/basty/BastyTrait.scala index 0f4333919baff4d6d2c051be8a1410f2bb9c5c27..0631b365bbb0fbf6caaa999bfa778a6b7dbe9401 100644 --- a/public/basty/src/main/scala/nl/lumc/sasc/biopet/pipelines/basty/BastyTrait.scala +++ b/public/basty/src/main/scala/nl/lumc/sasc/biopet/pipelines/basty/BastyTrait.scala @@ -42,7 +42,7 @@ trait BastyTrait extends MultiSampleQScript { lazy val shiva: ShivaTrait = new Shiva(qscript) - def summaryFile: File = new File(outputDir, "Sage.summary.json") + def summaryFile: File = new File(outputDir, "Basty.summary.json") //TODO: Add summary def summaryFiles: Map[String, File] = Map() 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 2a4595afa572bfd6469bd6f1eab500b55cf46217..ef176ab1e310d1e86924bb606b05ee19ec005f62 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 @@ -269,7 +269,7 @@ trait ShivaTrait extends MultiSampleQScript with SummaryQScript with Reference { } } - lazy val variantcalling = if (config("multisample_sample_variantcalling", default = true).asBoolean) { + lazy val variantcalling = if (config("multisample__variantcalling", default = true).asBoolean) { Some(makeVariantcalling(multisample = true)) } else None