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

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

All Implemented Interfaces:

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

Direct Known Subclasses:

CLocsFileReader, LocsFileReader, PosFileReader

public abstract class PositionFileReader
extends IlluminaFileReader

This class tries to open a Illumina position file including clocs, locs or pos file into a data input stream

Nested Class Summary

static class

PositionFileReader.Position position class

Field Summary

protected int

currentTotalClusters

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

fileName, inputStream

Constructor Summary

PositionFileReader(java.lang.String fileName)

Method Summary

int	getCurrentTotalClusters()
abstract PositionFileReader.Position	next()

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

close, getFileName, hasNext, readFourBytes, readFourBytes, remove

Methods inherited from class java.lang.Object

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

Field Detail

currentTotalClusters

protected int currentTotalClusters

Constructor Detail

PositionFileReader

public PositionFileReader(java.lang.String fileName)
                   throws java.io.FileNotFoundException

Parameters:

fileName -

Throws:

java.io.FileNotFoundException

Method Detail

next

public abstract PositionFileReader.Position next()

Specified by:

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

Overrides:

next in class IlluminaFileReader

getCurrentTotalClusters

public int getCurrentTotalClusters()

Returns:

the currentTotalClusters