umms.core.model.JCSAlignmentModel.FilteredIterator Class Reference

Inheritance diagram for umms.core.model.JCSAlignmentModel.FilteredIterator:

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Public Member Functions
	FilteredIterator (CloseableIterator< AlignmentCount > overlappers, Annotation region, CoordinateSpace cs, boolean fullyContained)
	FilteredIterator (CloseableIterator< AlignmentCount > reads)
boolean	hasNext ()
AlignmentCount	next ()
void	remove ()
void	close ()

Detailed Description

This class will represent an iterator over the filtered reads To make it efficient it will need to precompute the region in coordinate space It will also need to know the next element to compute the hasNext and getNext() functions

Author

mguttman

Constructor & Destructor Documentation

umms.core.model.JCSAlignmentModel.FilteredIterator.FilteredIterator	(	CloseableIterator< AlignmentCount >	overlappers,
		Annotation	region,
		CoordinateSpace	cs,
		boolean	fullyContained
	)

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umms.core.model.JCSAlignmentModel.FilteredIterator.FilteredIterator

(

CloseableIterator< AlignmentCount >

reads

)

This is the constructor for all reads other parms not meaningful

Parameters

reads

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Member Function Documentation

void umms.core.model.JCSAlignmentModel.FilteredIterator.close

(

)

boolean umms.core.model.JCSAlignmentModel.FilteredIterator.hasNext

(

)

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AlignmentCount umms.core.model.JCSAlignmentModel.FilteredIterator.next

(

)

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void umms.core.model.JCSAlignmentModel.FilteredIterator.remove

(

)

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

• java/umms/core/model/JCSAlignmentModel.java