Package htsjdk.samtools

Interface CoordinateSortedPairInfoMap.Codec<KEY,REC>

Enclosing class:
CoordinateSortedPairInfoMap<KEY,REC>
public static interface CoordinateSortedPairInfoMap.Codec<KEY,REC>
Client must implement this class, which defines the way in which records are written to and read from file.

  • Method Details

    • setOutputStream

      void setOutputStream(OutputStream os)
      Where to write encoded output
      Parameters:
      os -

    • setInputStream

      void setInputStream(InputStream is)
      Where to read encoded input from
      Parameters:
      is -

    • encode

      void encode(KEY key, REC record)
      Write object to output stream. If the key is part of the record, then there is no need to write it separately.

    • decode

      Map.Entry<KEY,REC> decode()
      Read the next key and record from the input stream and convert into a java object.
      Returns:
      null if no more records. Should throw exception if EOF is encountered in the middle of a record.