Package ngs

Interface ReadIterator

All Superinterfaces:

Fragment, FragmentIterator, Read

public interface ReadIterator
extends Read

Field Summary

Fields inherited from interface ngs.Read

aligned, all, fullyAligned, partiallyAligned, unaligned

Method Summary

Modifier and Type	Method	Description
boolean	nextRead()	Advance to first Read on initial invocation advance to next Read subsequently

Methods inherited from interface ngs.Fragment

getFragmentBases, getFragmentBases, getFragmentBases, getFragmentId, getFragmentQualities, getFragmentQualities, getFragmentQualities, isAligned, isPaired

Methods inherited from interface ngs.FragmentIterator

nextFragment

Methods inherited from interface ngs.Read

fragmentIsAligned, getNumFragments, getReadBases, getReadBases, getReadBases, getReadCategory, getReadGroup, getReadId, getReadName, getReadQualities, getReadQualities, getReadQualities

Method Details

nextRead

boolean nextRead()
          throws ErrorMsg

Advance to first Read on initial invocation advance to next Read subsequently

Returns:

false if no more Reads are available.

Throws:

ErrorMsg - if more Reads should be available, but could not be accessed.