com.affymetrix.genoviz.demo

Class StartCodonPainter

java.lang.Object

com.affymetrix.genoviz.demo.StartCodonPainter

All Implemented Interfaces:

com.affymetrix.genoviz.bioviews.ResiduePainter

public class StartCodonPainter
extends Object
implements com.affymetrix.genoviz.bioviews.ResiduePainter

another simple ResiduePainter. It ignores consensus and any data model. It just color codes ATG (and AUG). It also doesn't bother with color-coding anything else. So any other residues should retain their previous coloring.

Constructor Summary

Constructors

Constructor and Description
StartCodonPainter() constructs a painter that paints start codons red.
StartCodonPainter(Color theColor)

Method Summary

Modifier and Type	Method and Description
void	calculateColors(Color[] color_array, String residue_string, String consensus_string, int residue_start, int consensus_start) sets the start codons' color.
void	calculateColors(Object dataModel, Color[] color_array, String residue_string, String consensus_string, int residue_start, int consensus_start) sets the start codons' color.

Methods inherited from class java.lang.Object

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

Constructor Detail

StartCodonPainter

public StartCodonPainter(Color theColor)

Parameters:

theColor - for the start codons.

StartCodonPainter

public StartCodonPainter()

constructs a painter that paints start codons red.

Method Detail

calculateColors

public void calculateColors(Color[] color_array,
                            String residue_string,
                            String consensus_string,
                            int residue_start,
                            int consensus_start)

sets the start codons' color.

Specified by:

calculateColors in interface com.affymetrix.genoviz.bioviews.ResiduePainter

Parameters:

consensus_string - ignored.

consensus_start - ignored.

calculateColors

public void calculateColors(Object dataModel,
                            Color[] color_array,
                            String residue_string,
                            String consensus_string,
                            int residue_start,
                            int consensus_start)

sets the start codons' color.

Specified by:

calculateColors in interface com.affymetrix.genoviz.bioviews.ResiduePainter

Parameters:

dataModel - ignored.

consensus_string - ignored.

consensus_start - ignored.