Commit 1be5eeef authored by Peter van 't Hof's avatar Peter van 't Hof
Browse files

Fix gatk version

parent 168c0323
......@@ -25,5 +25,7 @@ trait GatkGeneral extends CommandLineGATK with BiopetJavaCommandLineFunction {
override val versionRegex = """(.*)""".r
override val versionExitcode = List(0, 1)
override def versionCommand = commandLine + " -version"
override def versionCommand = executable + " -jar " + jarFile + " -version"
override def getVersion = super.getVersion.collect { case version => "Gatk " + version }
}
......@@ -50,7 +50,9 @@ abstract class Gatk extends BiopetJavaCommandLineFunction {
override val versionRegex = """(.*)""".r
override val versionExitcode = List(0, 1)
override def versionCommand = commandLine + " -version"
override def versionCommand = executable + " -jar " + jarFile + " -version"
override def getVersion = super.getVersion.collect { case version => "Gatk " + version }
override def commandLine = super.commandLine +
required("-T", analysisType) +
......
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