Class BpmToNormalizationManifestCsv


  • @DocumentedFeature
    public class BpmToNormalizationManifestCsv
    extends CommandLineProgram
    A simple program to convert an Illumina bpm (bead pool manifest file) into a normalization manifest (bpm.csv) file The normalization manifest (bpm.csv) is a simple text file generated by Illumina tools - it has a specific format and is used by ZCall .
    • Field Detail

      • INPUT

        @Argument(shortName="I",
                  doc="The Illumina Bead Pool Manifest (.bpm) file")
        public File INPUT
      • CLUSTER_FILE

        @Argument(shortName="CF",
                  doc="An Illumina cluster file (egt)")
        public File CLUSTER_FILE
      • OUTPUT

        @Argument(shortName="O",
                  doc="The output (bpm.csv) file to write.")
        public File OUTPUT
    • Constructor Detail

      • BpmToNormalizationManifestCsv

        public BpmToNormalizationManifestCsv()
    • 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.