uk.ac.sanger.npg.illumina.file.reader
Class LocsFileReader

java.lang.Object
  uk.ac.sanger.npg.illumina.file.reader.IlluminaFileReader
      uk.ac.sanger.npg.illumina.file.reader.PositionFileReader
          uk.ac.sanger.npg.illumina.file.reader.LocsFileReader

All Implemented Interfaces:

java.io.Closeable, java.util.Iterator<java.lang.Object>

public class LocsFileReader
extends PositionFileReader

This class is a reader of a locs file

Nested Class Summary

Nested classes/interfaces inherited from class uk.ac.sanger.npg.illumina.file.reader.PositionFileReader

PositionFileReader.Position

Field Summary

Fields inherited from class uk.ac.sanger.npg.illumina.file.reader.PositionFileReader

currentTotalClusters

Fields inherited from class uk.ac.sanger.npg.illumina.file.reader.IlluminaFileReader

fileName, inputStream

Constructor Summary

LocsFileReader(java.lang.String locsFileName)
Constructor

Method Summary

int	getTotalCluster()
boolean	hasNext()
static void	main(java.lang.String[] args)
PositionFileReader.Position	next()

Methods inherited from class uk.ac.sanger.npg.illumina.file.reader.PositionFileReader

getCurrentTotalClusters

Methods inherited from class uk.ac.sanger.npg.illumina.file.reader.IlluminaFileReader

close, getFileName, readFourBytes, readFourBytes, remove

Methods inherited from class java.lang.Object

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

Constructor Detail

LocsFileReader

public LocsFileReader(java.lang.String locsFileName)
               throws java.io.FileNotFoundException,
                      java.io.IOException

Constructor

Parameters:

locsFileName - locs file name

Throws:

java.io.FileNotFoundException

java.io.IOException

Method Detail

hasNext

public boolean hasNext()

Specified by:

hasNext in interface java.util.Iterator<java.lang.Object>

Overrides:

hasNext in class IlluminaFileReader

Returns:

true if there is next cluster

next

public PositionFileReader.Position next()

Specified by:

next in interface java.util.Iterator<java.lang.Object>

Specified by:

next in class PositionFileReader

Returns:

[x, y] as a string array

getTotalCluster

public int getTotalCluster()

Returns:

the totalCluster

main

public static void main(java.lang.String[] args)
                 throws java.lang.Exception

Parameters:

args -

Throws:

java.lang.Exception