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edu.stanford.genetics.treeview.dendroview
Class ArrayDrawer  

java.lang.Object
  java.util.Observable
      edu.stanford.genetics.treeview.dendroview.ArrayDrawer

All Implemented Interfaces:

java.util.Observer

Direct Known Subclasses:

KnnArrayDrawer

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public class ArrayDrawer

extends java.util.Observable

implements java.util.Observer

Class for Drawing A Colored Grid Representation of a Data Matrix. Each cell in the view corresponds to an element in the array. The color of the pixels is determined by the ColorExtractor, which is passed in the value to be converted.

The ArrayDrawer is Observable. It setsChanged() itself when the data array is changed, but you have to call notifyObservers() yourself. Notifications from the ColorExtractor, however, are immediately passed on to listeners.

Upon setting a data array, ArrayDrawer will set a reference to the data array, and may refer to it when it asked to draw things. Of course, it may form some kind of internal buffer- you're advised to call setData() if you change the data, and not to change the data unless you call setData() too.

The ArrayDrawer can draw on a Graphics object. It requires a source rectangle in units of array indexes, to determine which array values to render, and a destination rectangle to draw them to.

At some point, we many want to allow arrays of ints to specify source rows and columns to grab data from for non-contiguous views.

Version:

$Revision: 1.9 $ $Date: 2003/08/01 19:09:24 $

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Field Summary
private  boolean	bufferValid
protected  ColorExtractor	colorExtractor           Used to convert data values into colors
protected  edu.stanford.genetics.treeview.DataMatrix	dataMatrix           The array of data values to be rendered.
protected  double	nodata
private  edu.stanford.genetics.treeview.ConfigNode	root

 

Fields inherited from class java.util.Observable

 

Constructor Summary

ArrayDrawer()           Constructor does nothing but set defaults

 

Method Summary
void	bindConfig(edu.stanford.genetics.treeview.ConfigNode configNode)           binds this arraydrawer to a particular ConfigNode.
java.awt.Color	getColor(int x, int y)           Get Color for a given array element
ColorExtractor	getColorExtractor()           Gets the colorExtractor attribute of the ArrayDrawer object
double	getValue(int x, int y)           Get value for a given array element
double	noData()           returns the value which stands for nodata
void	paint(java.awt.Graphics g, java.awt.Rectangle source, java.awt.Rectangle dest, int[] geneOrder)           Paint the view of the Pixels
void	paint(int[] pixels, java.awt.Rectangle source, java.awt.Rectangle dest, int scanSize)           Paint the array values onto pixels.
void	paint(int[] pixels, java.awt.Rectangle source, java.awt.Rectangle dest, int scanSize, int[] geneOrder)           Paint the array values onto pixels.
void	paintPixel(java.awt.Graphics g, MapContainer xmap, MapContainer ymap, int x, int y, int[] geneOrder)           Method to draw a single point (x,y) on grapics g using xmap and ymap
void	recalculateContrast()           sets contrast to 4 times the mean.
void	setColorExtractor(ColorExtractor colorExtractor)           Set ColorExtractor for future draws
void	setDataMatrix(edu.stanford.genetics.treeview.DataMatrix matrix)           Set the source of the data.
private  void	setDefaults()           resets the ArrayDrawer to a default state.
void	update(java.util.Observable o, java.lang.Object arg)           This drawer can only draw from a single, unchangng model This method may not be necessary.

 

Methods inherited from class java.util.Observable

addObserver, clearChanged, countObservers, deleteObserver, deleteObservers, hasChanged, notifyObservers, notifyObservers, setChanged

 

Methods inherited from class java.lang.Object

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

 

Field Detail

colorExtractor

protected ColorExtractor colorExtractor

Used to convert data values into colors

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root

private edu.stanford.genetics.treeview.ConfigNode root

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bufferValid

private boolean bufferValid

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dataMatrix

protected edu.stanford.genetics.treeview.DataMatrix dataMatrix

The array of data values to be rendered.

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nodata

protected double nodata

Constructor Detail

ArrayDrawer

public ArrayDrawer()

Constructor does nothing but set defaults

Method Detail

bindConfig

public void bindConfig(edu.stanford.genetics.treeview.ConfigNode configNode)

binds this arraydrawer to a particular ConfigNode.

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setColorExtractor

public void setColorExtractor(ColorExtractor colorExtractor)

Set ColorExtractor for future draws

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getColorExtractor

public ColorExtractor getColorExtractor()

Gets the colorExtractor attribute of the ArrayDrawer object

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setDataMatrix

public void setDataMatrix(edu.stanford.genetics.treeview.DataMatrix matrix)

Set the source of the data.

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recalculateContrast

public void recalculateContrast()

sets contrast to 4 times the mean. Works well in practice.

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paint

public void paint(java.awt.Graphics g,
                  java.awt.Rectangle source,
                  java.awt.Rectangle dest,
                  int[] geneOrder)

Paint the view of the Pixels

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paint

public void paint(int[] pixels,
                  java.awt.Rectangle source,
                  java.awt.Rectangle dest,
                  int scanSize)

Paint the array values onto pixels. This method will do averaging if multiple values map to the same pixel.

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paint

public void paint(int[] pixels,
                  java.awt.Rectangle source,
                  java.awt.Rectangle dest,
                  int scanSize,
                  int[] geneOrder)

Paint the array values onto pixels. This method will do averaging if multiple values map to the same pixel.

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paintPixel

public void paintPixel(java.awt.Graphics g,
                       MapContainer xmap,
                       MapContainer ymap,
                       int x,
                       int y,
                       int[] geneOrder)

Method to draw a single point (x,y) on grapics g using xmap and ymap

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update

public void update(java.util.Observable o,
                   java.lang.Object arg)

This drawer can only draw from a single, unchangng model This method may not be necessary. Neither may the observer/observable stuff.

Specified by:

update in interface java.util.Observer

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getValue

public double getValue(int x,
                       int y)

Get value for a given array element

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getColor

public java.awt.Color getColor(int x,
                               int y)

Get Color for a given array element

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noData

public double noData()

returns the value which stands for nodata

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setDefaults

private void setDefaults()

resets the ArrayDrawer to a default state.

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Overview  Package   Class  Use  Deprecated  Index
Home >> All >> edu >> stanford >> genetics >> treeview >> [ dendroview overview ]	PREV CLASS  NEXT CLASS
SUMMARY:  JAVADOC |  SOURCE |  DOWNLOAD | NESTED | FIELD | CONSTR | METHOD	DETAIL: FIELD | CONSTR | METHOD

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