picard.sam.markduplicates.util.RepresentativeReadIndexerCodec

All Implemented Interfaces:: htsjdk.samtools.util.SortingCollection.Codec<RepresentativeReadIndexer>, Cloneable

public class RepresentativeReadIndexerCodec extends Object implements htsjdk.samtools.util.SortingCollection.Codec<RepresentativeReadIndexer>

Codec for read names and integers that outputs the primitive fields and reads them back.

Field Details
- in
  
  protected DataInputStream in
- out
  
  protected DataOutputStream out
Constructor Details
- RepresentativeReadIndexerCodec
  
  public RepresentativeReadIndexerCodec()
Method Details
- clone
  
  public htsjdk.samtools.util.SortingCollection.Codec<RepresentativeReadIndexer> clone()
  
  Specified by:
  
  clone in interface htsjdk.samtools.util.SortingCollection.Codec<RepresentativeReadIndexer>
  
  Overrides:
  
  clone in class Object
- setOutputStream
  
  public void setOutputStream(OutputStream os)
  
  Specified by:
  
  setOutputStream in interface htsjdk.samtools.util.SortingCollection.Codec<RepresentativeReadIndexer>
- setInputStream
  
  public void setInputStream(InputStream is)
  
  Specified by:
  
  setInputStream in interface htsjdk.samtools.util.SortingCollection.Codec<RepresentativeReadIndexer>
- getInputStream
  
  public DataInputStream getInputStream()
- getOutputStream
  
  public DataOutputStream getOutputStream()
- encode
  
  public void encode(RepresentativeReadIndexer rni)
  
  Specified by:
  
  encode in interface htsjdk.samtools.util.SortingCollection.Codec<RepresentativeReadIndexer>
- decode
  
  public RepresentativeReadIndexer decode()
  
  Specified by:
  
  decode in interface htsjdk.samtools.util.SortingCollection.Codec<RepresentativeReadIndexer>

Class RepresentativeReadIndexerCodec

Field Summary