diff --git a/public/gears/src/main/scala/nl/lumc/sasc/biopet/pipelines/gears/CombineReads.scala b/public/gears/src/main/scala/nl/lumc/sasc/biopet/pipelines/gears/CombineReads.scala index 40b40c1419e3bde5e44af8585a4896bdadf6a384..608afa3c0945e05e5c669ba8737393ea13109da3 100644 --- a/public/gears/src/main/scala/nl/lumc/sasc/biopet/pipelines/gears/CombineReads.scala +++ b/public/gears/src/main/scala/nl/lumc/sasc/biopet/pipelines/gears/CombineReads.scala @@ -25,8 +25,8 @@ class CombineReads(val root: Configurable) extends QScript with SummaryQScript w private lazy val flash = new Flash(this) - private lazy val forwardPrimers: List[String] = config("forward_primers") - private lazy val reversePrimers: List[String] = config("reverse_primers") + private lazy val forwardPrimers: List[String] = config("forward_primers", default = Nil) + private lazy val reversePrimers: List[String] = config("reverse_primers", default = Nil) def combinedFastq: File = if ((forwardPrimers :: reversePrimers).nonEmpty) swapExt(outputDir, flash.combinedFastq, ".fastq.gz", ".clip.fastq.gz")