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Commit 9b16ee45 authored by Peter van 't Hof's avatar Peter van 't Hof
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fix executable

parent fb53f990
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...@@ -4,7 +4,7 @@ import java.io.File ...@@ -4,7 +4,7 @@ import java.io.File
import nl.lumc.sasc.biopet.core.BiopetCommandLineFunction import nl.lumc.sasc.biopet.core.BiopetCommandLineFunction
import nl.lumc.sasc.biopet.core.config.Configurable import nl.lumc.sasc.biopet.core.config.Configurable
import org.broadinstitute.gatk.utils.commandline.{Output, Input} import org.broadinstitute.gatk.utils.commandline.{ Output, Input }
/** /**
* Created by pjvan_thof on 3/4/15. * Created by pjvan_thof on 3/4/15.
...@@ -18,7 +18,10 @@ class Tabix(val root: Configurable) extends BiopetCommandLineFunction { ...@@ -18,7 +18,10 @@ class Tabix(val root: Configurable) extends BiopetCommandLineFunction {
protected var output: File = null protected var output: File = null
var p: Option[String] = config("p") var p: Option[String] = config("p")
executable = config("exe", default = "bgzip")
executable = config("exe", default = "tabix")
override val versionRegex = """version: (.*)""".r
override def versionCommand = executable
override def beforeGraph: Unit = { override def beforeGraph: Unit = {
output = new File(input.getAbsolutePath + ".tbi") output = new File(input.getAbsolutePath + ".tbi")
......
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