iterator

Type Members

1. case class PosStream(uncompressedBytes: UncompressedBytes, header: Header) extends PosStreamI[UncompressedBytes] with Product with Serializable

   

   Non-seekable PosStreamI

2. trait PosStreamI[Stream <: UncompressedBytesI[_]] extends RecordIterator[Pos, Stream]

   

   Interface for iterating over record-start Poss in a BAM file

3. trait RecordIterator[T, UncompressedBytes <: UncompressedBytesI[_]] extends SimpleIterator[T] with Closeable

   

   Interface for iterators that wrap a (compressed) BAM-file InputStream and emit one object for each underlying record.

4. case class RecordStream[Stream <: UncompressedBytesI[_]](uncompressedBytes: Stream, header: Header) extends RecordStreamI[Stream] with Product with Serializable

   

   Non-seekable RecordStreamI

5. trait RecordStreamI[Stream <: UncompressedBytesI[_]] extends RecordIterator[(Pos, SAMRecord), Stream]

   

   Interface for iterating over BAM records (keyed by Pos)

6. case class SeekablePosStream(uncompressedBytes: SeekableUncompressedBytes, header: Header) extends PosStreamI[SeekableUncompressedBytes] with SeekableRecordIterator[Pos] with Product with Serializable

   

   Seekable PosStreamI

7. trait SeekableRecordIterator[T] extends RecordIterator[T, SeekableUncompressedBytes]

   

   Interface for RecordIterators that adds ability to seek

8. case class SeekableRecordStream(uncompressedBytes: SeekableUncompressedBytes, header: Header) extends RecordStreamI[SeekableUncompressedBytes] with SeekableRecordIterator[(Pos, SAMRecord)] with Product with Serializable

   

   Seekable RecordStreamI

9. case class UnexpectedEOF(pos: Pos, exception: RuntimeEOFException) extends RuntimeException with Product with Serializable