Package picard.sam

Class AddOATag


@DocumentedFeature public class AddOATag extends CommandLineProgram
  • Field Details

    • INPUT

      @Argument(shortName="I", doc="SAM or BAM input file") public String INPUT
    • OUTPUT

      @Argument(shortName="O", doc="SAM or BAM file to write merged result to") public String OUTPUT
    • INTERVAL_LIST

      @Argument(shortName="L", doc="If provided, only records that overlap given interval list will have the OA tag added.", optional=true) public File INTERVAL_LIST
  • Constructor Details

    • AddOATag

      public AddOATag()
  • Method Details

    • 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.