/** When Gatk's CatVariants has been called with empty VCF-files, then it also outputs an empty file. When this parameter is set to true, then the empty file gets added a valid VCF-file header.*/
varwriteHeaderToEmptyOutput:Boolean=false
/** assumeSorted should be true if the input files are already sorted (based on the position of the variants) */
@Argument(fullName="assumeSorted",shortName="assumeSorted",doc="assumeSorted should be true if the input files are already sorted (based on the position of the variants)",required=false,exclusiveOf="",validation="")
varassumeSorted:Boolean=_
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@@ -73,5 +76,14 @@ class CatVariants(val root: Configurable) extends BiopetJavaCommandLineFunction