Package picard.illumina

Class ExtractIlluminaBarcodes.PerTileBarcodeExtractor

java.lang.Object

picard.illumina.ExtractIlluminaBarcodes.PerTileBarcodeExtractor

All Implemented Interfaces:

Runnable

Enclosing class:

ExtractIlluminaBarcodes

public static class ExtractIlluminaBarcodes.PerTileBarcodeExtractor
extends Object
implements Runnable

Extracts barcodes and accumulates metrics for an entire tile.

Constructor Summary

Constructors

Constructor	Description
PerTileBarcodeExtractor(int tile, File barcodeFile, IlluminaDataProviderFactory factory, BarcodeExtractor extractor)	Constructor

Method Summary

Modifier and Type	Method	Description
Exception	getException()
Map<String,BarcodeMetric>	getMetrics()
BarcodeMetric	getNoMatchMetric()
void	run()	run method which extracts barcodes and accumulates metrics for an entire tile

Methods inherited from class java.lang.Object

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

Constructor Details

PerTileBarcodeExtractor

public PerTileBarcodeExtractor(int tile,
 File barcodeFile,
 IlluminaDataProviderFactory factory,
 BarcodeExtractor extractor)

Constructor

Parameters:

tile - The number of the tile being processed; used for logging only.

barcodeFile - The file to write the barcodes to

Method Details

getMetrics

public Map<String,BarcodeMetric> getMetrics()

getNoMatchMetric

public BarcodeMetric getNoMatchMetric()

getException

public Exception getException()

run

public void run()

run method which extracts barcodes and accumulates metrics for an entire tile

Specified by:

run in interface Runnable