diff --git a/biopet-extensions/src/main/scala/nl/lumc/sasc/biopet/extensions/Star.scala b/biopet-extensions/src/main/scala/nl/lumc/sasc/biopet/extensions/Star.scala index a4b43d0de5c4b009fbbac6f8f21aecb316479a68..04d2a39b68adc2fc8b70ea1018ee6e168d2eac0c 100644 --- a/biopet-extensions/src/main/scala/nl/lumc/sasc/biopet/extensions/Star.scala +++ b/biopet-extensions/src/main/scala/nl/lumc/sasc/biopet/extensions/Star.scala @@ -75,7 +75,7 @@ class Star(val root: Configurable) extends BiopetCommandLineFunction with Refere var genomeSAindexNbases: Option[Int] = config("genomesaindexnbases") var genomeSAsparseD: Option[Int] = config("genomesasparsed") - var sjdbGTFfile: Option[String] = config("sjdbgtfile") + var sjdbGTFfile: Option[File] = config("sjdbgtfile") var sjdbGTFchrPrefix: Option[String] = config("sjdbgtfchrprefix") var sjdbGTFfeatureExon: Option[String] = config("sjdbgtffeatureexon") var sjdbGTFtagExonParentTranscript: Option[String] = config("sjdbgtftagexonparenttranscript")