Commit 3c8c6fa3 authored by Peter van 't Hof's avatar Peter van 't Hof

Fix config error

parent 2d4ea4b7
......@@ -64,7 +64,7 @@ class ShivaSvCalling(val root: Configurable) extends QScript with SummaryQScript
}
/** Variantcallers requested by the config */
protected val configCallers: Set[String] = config("sv_callers")
protected val configCallers: Set[String] = config("sv_callers", default = Set("breakdancer", "clever", "delly"))
/** This will add jobs for this pipeline */
def biopetScript(): Unit = {
......@@ -148,7 +148,7 @@ class ShivaSvCalling(val root: Configurable) extends QScript with SummaryQScript
/** Files for the summary */
def summaryFiles: Map[String, File] = {
val callers: Set[String] = config("sv_callers")
val callers: Set[String] = configCallers
//callersList.filter(x => callers.contains(x.name)).map(x => x.name -> x.outputFile).toMap + ("final" -> finalFile)
Map()
}
......
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