Class ConvertSequencingArtifactToOxoG


  • @DocumentedFeature
    public class ConvertSequencingArtifactToOxoG
    extends CommandLineProgram
    • Field Detail

      • INPUT_BASE

        @Argument(shortName="I",
                  doc="Basename of the input artifact metrics file (output by CollectSequencingArtifactMetrics)")
        public File INPUT_BASE
      • OUTPUT_BASE

        @Argument(shortName="O",
                  doc="Basename for output OxoG metrics. Defaults to same basename as input metrics",
                  optional=true)
        public File OUTPUT_BASE
    • Constructor Detail

      • ConvertSequencingArtifactToOxoG

        public ConvertSequencingArtifactToOxoG()
    • Method Detail

      • doWork

        protected int doWork()
        Description copied from class: CommandLineProgram
        Do the work after command line has been parsed. RuntimeException may be thrown by this method, and are reported appropriately.
        Specified by:
        doWork in class CommandLineProgram
        Returns:
        program exit status.