Commit 5800e9ae authored by Peter van 't Hof's avatar Peter van 't Hof
Browse files

Added a print of final config

parent 92a0c676
......@@ -2,7 +2,8 @@ package nl.lumc.sasc.biopet.core
import nl.lumc.sasc.biopet.utils.{ Question, ToolCommand }
import nl.lumc.sasc.biopet.utils.config.Config
import nl.lumc.sasc.biopet.utils.{ConfigUtils, Question, ToolCommand}
* Created by pjvanthof on 17/12/2016.
......@@ -27,7 +28,9 @@ trait TemplateTool extends ToolCommand {
val cmdArgs: Args = argsParser.parse(args, Args()) getOrElse (throw new IllegalArgumentException)
val standard: Map[String, Any] = Map("output_dir" -> Question.askValue("Output directory", validation = List(isAbsolutePath, parentIsWritable)))
val config = pipelineMap(standard,
def pipelineMap(map: Map[String, Any], expert: Boolean): Map[String, Any]
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