broad.core.datastructures.JCSCache Class Reference

Collaboration diagram for broad.core.datastructures.JCSCache:

Classes
class	JCSNodeIterator

Public Member Functions
	JCSCache (PairedEndReader reader, int cacheSize, JCSAlignmentModel m)
FilteredIterator	query (Annotation window, boolean fullyContained, CoordinateSpace cs)
CloseableIterator< AlignmentCount >	getReads (Annotation w, boolean fullyContained)
CloseableIterator< AlignmentCount >	getReads ()

Static Public Member Functions
static Integer	generateRandom (int length)
static void	dispose (String cacheName)

Constructor & Destructor Documentation

broad.core.datastructures.JCSCache.JCSCache	(	PairedEndReader	reader,
		int	cacheSize,
		JCSAlignmentModel	m
	)

Initializes the cache

Parameters

reader

Member Function Documentation

static void broad.core.datastructures.JCSCache.dispose ( String  cacheName )

static

Shuts down the specified cache, and removes it from the list of active caches so it can be created again.

Parameters

cacheName

The name of the cache to dispose of.

static Integer broad.core.datastructures.JCSCache.generateRandom ( int  length )

static

Generates a Long random number of length "length". We will use 10 digits

Parameters

length

Returns

CloseableIterator<AlignmentCount> broad.core.datastructures.JCSCache.getReads	(	Annotation	w,
		boolean	fullyContained
	)

Here is the caller graph for this function:

CloseableIterator<AlignmentCount> broad.core.datastructures.JCSCache.getReads

(

)

FilteredIterator broad.core.datastructures.JCSCache.query	(	Annotation	window,
		boolean	fullyContained,
		CoordinateSpace	cs
	)

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The documentation for this class was generated from the following file:

• java/broad/core/datastructures/JCSCache.java