Commit ec59d68a authored by Peter van 't Hof's avatar Peter van 't Hof
Browse files

Disable gathering

parent dbc5cfbd
......@@ -15,17 +15,17 @@
*/
package nl.lumc.sasc.biopet.core
import java.io.{ PrintWriter, File, FileInputStream }
import java.io.{File, FileInputStream, PrintWriter}
import java.security.MessageDigest
import nl.lumc.sasc.biopet.utils.Logging
import org.broadinstitute.gatk.utils.commandline.{ Output, Input }
import org.broadinstitute.gatk.utils.commandline.{Gather, Input, Output}
import org.broadinstitute.gatk.utils.runtime.ProcessSettings
import org.ggf.drmaa.JobTemplate
import scala.collection.mutable
import scala.io.Source
import scala.sys.process.{ Process, ProcessLogger }
import scala.sys.process.{Process, ProcessLogger}
import scala.collection.JavaConversions._
/** Biopet command line trait to auto check executable and cluster values */
......@@ -36,6 +36,7 @@ trait BiopetCommandLineFunction extends CommandLineResources { biopetFunction =>
var deps: List[File] = Nil
@Output
@Gather(enabled = false)
var outputFiles: List[File] = Nil
var executable: String = _
......
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