org.utgenome.gwt.utgb.client.canvas
Class IntervalLayout.IntervalRetriever

java.lang.Object
  org.utgenome.gwt.utgb.client.bio.GenomeRangeVisitorBase
      org.utgenome.gwt.utgb.client.canvas.IntervalLayout.IntervalRetriever

All Implemented Interfaces:

GenomeRangeVisitor

Enclosing class:

IntervalLayout

public static class IntervalLayout.IntervalRetriever
extends GenomeRangeVisitorBase

Retrieves the interval (x1, x2) and the height of OnGenome objects

Author:

leo

Field Summary

boolean	allowPEOverlap
int	end
int	height
boolean	isDefined
int	start

Constructor Summary

IntervalLayout.IntervalRetriever()

Method Summary

void	clear()
void	visitInterval(Interval interval)
void	visitReadCoverage(ReadCoverage readCoverage)
void	visitSAMReadLight(SAMReadLight r)
void	visitSAMReadPair(SAMReadPair pair)
void	visitSAMReadPairFragment(SAMReadPairFragment fragment)

Methods inherited from class org.utgenome.gwt.utgb.client.bio.GenomeRangeVisitorBase

visitBEDGene, visitDefault, visitGap, visitGene, visitGraph, visitRead, visitReadList, visitSAMRead, visitSequence

Methods inherited from class java.lang.Object

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

Field Detail

allowPEOverlap

public boolean allowPEOverlap

start

public int start

end

public int end

height

public int height

isDefined

public boolean isDefined

Constructor Detail

IntervalLayout.IntervalRetriever

public IntervalLayout.IntervalRetriever()

Method Detail

clear

public void clear()

visitInterval

public void visitInterval(Interval interval)

Specified by:

visitInterval in interface GenomeRangeVisitor

Overrides:

visitInterval in class GenomeRangeVisitorBase

visitSAMReadLight

public void visitSAMReadLight(SAMReadLight r)

Specified by:

visitSAMReadLight in interface GenomeRangeVisitor

Overrides:

visitSAMReadLight in class GenomeRangeVisitorBase

visitReadCoverage

public void visitReadCoverage(ReadCoverage readCoverage)

Specified by:

visitReadCoverage in interface GenomeRangeVisitor

Overrides:

visitReadCoverage in class GenomeRangeVisitorBase

visitSAMReadPairFragment

public void visitSAMReadPairFragment(SAMReadPairFragment fragment)

Specified by:

visitSAMReadPairFragment in interface GenomeRangeVisitor

Overrides:

visitSAMReadPairFragment in class GenomeRangeVisitorBase

visitSAMReadPair

public void visitSAMReadPair(SAMReadPair pair)

Specified by:

visitSAMReadPair in interface GenomeRangeVisitor

Overrides:

visitSAMReadPair in class GenomeRangeVisitorBase