picard.illumina.parser

Class IlluminaDataProvider

java.lang.Object

picard.illumina.parser.IlluminaDataProvider

All Implemented Interfaces:

java.lang.Iterable<ClusterData>, java.util.Iterator<ClusterData>

public class IlluminaDataProvider
extends java.lang.Object
implements java.util.Iterator<ClusterData>, java.lang.Iterable<ClusterData>

Parse various formats and versions of Illumina Basecall files, and use them the to populate ClusterData objects. Clients of this code should use IlluminaDataProviderFactory to create an IlluminaDataProvider. IlluminaDataProvider is immutable after construction.

Author:

jburke@broadinstitute.org

Method Summary

Modifier and Type	Method and Description
void	close()
boolean	hasNext()
java.util.Iterator<ClusterData>	iterator()
ClusterData	next()
void	remove()
void	seekToTile(int oneBasedTileNumber) Jump so that the next record returned will be from the specified tile.

Methods inherited from class java.lang.Object

clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait

Methods inherited from interface java.util.Iterator

forEachRemaining

Methods inherited from interface java.lang.Iterable

forEach, spliterator

Method Detail

hasNext

public boolean hasNext()

Specified by:

hasNext in interface java.util.Iterator<ClusterData>

Returns:

True if we have more clusters to read

next

public ClusterData next()

Specified by:

next in interface java.util.Iterator<ClusterData>

Returns:

Current cluster data populated with only the data that matches one of the data types in dataTypes.

remove

public void remove()

Specified by:

remove in interface java.util.Iterator<ClusterData>

seekToTile

public void seekToTile(int oneBasedTileNumber)

Jump so that the next record returned will be from the specified tile.

iterator

public java.util.Iterator<ClusterData> iterator()

Specified by:

iterator in interface java.lang.Iterable<ClusterData>

close

public void close()