Commit b220a035 authored by Sander Bollen's avatar Sander Bollen
Browse files

wrapper for xcnv to bed

parent d64c43d1
import nl.lumc.sasc.biopet.core.ToolCommandFunction
import nl.lumc.sasc.biopet.utils.config.Configurable
import org.broadinstitute.gatk.utils.commandline.{Argument, Input, Output}
* Created by Sander Bollen on 24-11-16.
class XcnvToBed(val root: Configurable) extends ToolCommandFunction {
def toolObject =
var inputXcnv: File = _
var outpuBed: File = _
var sample: String = _
override def cmdLine = {
super.cmdLine + required("-I", inputXcnv) + required("-O", outpuBed) + required("-S", sample)
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