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

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.CLocsFileReader

All Implemented Interfaces:

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

public class CLocsFileReader
extends PositionFileReader

This class is a reader of a clocs 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

CLocsFileReader(java.lang.String cLocsFileName)
Constructor

Method Summary

int	getCurrentBlock()
int	getTotalBlocks()
boolean	hasNext() this method should mean hasNextBlock Maybe no any cluster available in the rest of blocks
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

CLocsFileReader

public CLocsFileReader(java.lang.String cLocsFileName)
                throws java.lang.Exception

Constructor

Parameters:

cLocsFileName - clocs file name

Throws:

java.lang.Exception

Method Detail

hasNext

public boolean hasNext()

this method should mean hasNextBlock Maybe no any cluster available in the rest of blocks

Specified by:

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

Overrides:

hasNext in class IlluminaFileReader

Returns:

true if there is next cluster but the next() method will return null even if this method return true when the rest of blocks have no cluster there

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]

getTotalBlocks

public int getTotalBlocks()

Returns:

the totalBlocks

getCurrentBlock

public int getCurrentBlock()

Returns:

the currentBlock

main

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

Parameters:

args -

Throws:

java.lang.Exception