Class SamReader.ReaderImplementation

  • All Implemented Interfaces:
    SamReader.PrimitiveSamReader
    Direct Known Subclasses:
    BAMFileReader, CRAMFileReader, HtsgetBAMFileReader, SRAFileReader
    Enclosing interface:
    SamReader

    public abstract static class SamReader.ReaderImplementation
    extends Object
    implements SamReader.PrimitiveSamReader
    Internal interface for SAM/BAM/CRAM file reader implementations, as distinct from non-file-based readers. Implemented as an abstract class to enforce better access control. TODO -- Many of these methods only apply for a subset of implementations, TODO -- and either no-op or throw an exception for the others. TODO -- We should consider refactoring things to avoid this; TODO -- perhaps we can get away with not having this class at all.
    • Constructor Detail

      • ReaderImplementation

        public ReaderImplementation()