Package picard.sam

Class CleanSam

    • Field Detail

      • INPUT

        @Argument(shortName="I",
                  doc="Input SAM to be cleaned.")
        public File INPUT
      • OUTPUT

        @Argument(shortName="O",
                  doc="Where to write cleaned SAM.")
        public File OUTPUT
    • Constructor Detail

      • CleanSam

        public CleanSam()
    • Method Detail

      • doWork

        protected int doWork()
        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.