Class ExprProfileCanvas

java.lang.Object
  |
  +--java.awt.Component
        |
        +--java.awt.Canvas
              |
              +--ExprProfileCanvas

All Implemented Interfaces:

javax.accessibility.Accessible, java.awt.image.ImageObserver, java.awt.MenuContainer, java.io.Serializable

class ExprProfileCanvas

extends java.awt.Canvas

The ExprProfileCanvas is used to draw the expression profile. It also tracks locations of points drawn so they can be used with the event handler when the user clicks on a point or bar, etc.

This work was produced by Peter Lemkin of the National Cancer Institute, an agency of the United States Government. As a work of the United States Government there is no associated copyright. It is offered as open source software under the Mozilla Public License (version 1.1) subject to the limitations noted in the accompanying LEGAL file. This notice must be included with the code. The MAExplorer Mozilla and Legal files are available on http://maexplorer.sourceforge.net/.

Version:

$Date: 2003/07/07 21:40:41 $ $Revision: 1.9 $

Author:

P. Lemkin (NCI), G. Thornwall (SAIC), NCI-Frederick, Frederick, MD

See Also:

MAExplorer Home, Serialized Form

Inner classes inherited from class java.awt.Canvas

java.awt.Canvas.AccessibleAWTCanvas

Inner classes inherited from class java.awt.Component

java.awt.Component.AccessibleAWTComponent, java.awt.Component.AWTTreeLock

Field Summary

(package private) boolean	didDataSetupFlag set by setupData() if successful
(package private) boolean	doMeanPlotsFlag mean else individual plots
(package private) boolean	drawAdditionalDataFlag draw title & additional data if larger format.
(package private) boolean	drawIntoImageFlag set if draw plot to GIF file
(package private) boolean	drawLabelsFlag ARG: draw labels for larger version
(package private) ExprProfile	ep expression profile for mid
private static java.awt.Font	font
private int	fontHeight height font size of current font
private int	fontLeading leading font size of current font
(package private) MAExplorer	mae instance of MAExplorer so we can clear flags indicating the user did a manual quit()
(package private) static int	MIN_CANVAS_HEIGHT default canvas height size
(package private) static int	MIN_CANVAS_WIDTH default canvas width size
(package private) static int	MODE_CIRCLE draw circles for each entry
(package private) static int	MODE_CURVE draw continuous curve
(package private) static int	MODE_LINE draw vertical bars
(package private) java.lang.String	oGifFileName full Gif file path name
(package private) int	plotStyleMode plot mode style: 0=line, 1=circle, 2=curve
int	preferredHeight preferred canvas height size
int	preferredWidth preferred canvas width size
(package private) boolean	showErrBarsFlag draw error bars for each line
(package private) boolean	showKmeansDataFlag report K-means data else just CloneID & name
(package private) static int	TARGET_SIZE target Size for selecting a line
private java.lang.String	title ARG: opt.
private static java.awt.Font	titleFont
(package private) int	xCursor event handler mouse X cursor coordinates
(package private) int	yCursor event handler mouse Y cursor coordinates
(package private) int	zoomBarsMag zoom magnification: by 1X, 2X, 5X, 10X, 20X mod

Fields inherited from class java.awt.Canvas

base, nameCounter, serialVersionUID

Fields inherited from class java.awt.Component

accessibleContext, actionListenerK, adjustmentListenerK, appContext, background, BOTTOM_ALIGNMENT, CENTER_ALIGNMENT, changeSupport, componentListener, componentListenerK, componentOrientation, componentSerializedDataVersion, containerListenerK, cursor, dbg, dropTarget, enabled, eventMask, focusListener, focusListenerK, foreground, graphicsConfig, hasFocus, height, hierarchyBoundsListener, hierarchyBoundsListenerK, hierarchyListener, hierarchyListenerK, incRate, inputMethodListener, inputMethodListenerK, isInc, isPacked, itemListenerK, keyListener, keyListenerK, LEFT_ALIGNMENT, locale, LOCK, metrics, minSize, mouseListener, mouseListenerK, mouseMotionListener, mouseMotionListenerK, name, nameExplicitlySet, newEventsOnly, ownedWindowK, parent, peer, peerFont, popups, prefSize, privateKey, RIGHT_ALIGNMENT, textListenerK, TOP_ALIGNMENT, valid, visible, width, windowClosingException, windowListenerK, x, y

Fields inherited from interface java.awt.image.ImageObserver

ABORT, ALLBITS, ERROR, FRAMEBITS, HEIGHT, PROPERTIES, SOMEBITS, WIDTH

Constructor Summary

(package private)

ExprProfileCanvas(MAExplorer mae, int mid, java.lang.String title, java.awt.Font font, int preferredWidth, int preferredHeight, boolean showKmeansDataFlag, boolean drawLabelsFlag) ExprProfileCanvas() - Constructor to display an expression profile in a canvas.

Method Summary

(package private) boolean	drawGifFile(java.lang.String oGifFileName) drawGifFile() - draw expression plot into Gif image file if in standalone mode.
java.awt.Dimension	getMinimumSize() getMinimumSize() - get the minimum preferred size
java.awt.Dimension	getPreferredSize() getPreferredSize() - get the preferred size
void	paint(java.awt.Graphics g) paint() - draw the expression profile in the canvas if a legal gene MID.
(package private) void	setPlotEPmeansData(int mid, int hpDataNbr, float maxHPdataMn, float[] hpDataMn, float[] hpDataSD, boolean doMeanPlotsFlag) setPlotEPmeansData() - set expression profile data so plot mean EP data.
(package private) boolean	updateData(int mid, java.lang.String title, boolean drawLabelsFlag) updateData() - update expression profile plot with new gene data.

Methods inherited from class java.awt.Canvas

, addNotify, constructComponentName, getAccessibleContext, postsOldMouseEvents

Methods inherited from class java.awt.Component

action, add, addComponentListener, addFocusListener, addHierarchyBoundsListener, addHierarchyListener, addInputMethodListener, addKeyListener, addMouseListener, addMouseMotionListener, addPropertyChangeListener, addPropertyChangeListener, areInputMethodsEnabled, bounds, checkGD, checkImage, checkImage, checkWindowClosingException, coalesceEvents, contains, contains, createChildHierarchyEvents, createHierarchyEvents, createImage, createImage, deliverEvent, disable, disableEvents, dispatchEvent, dispatchEventImpl, doLayout, enable, enable, enableEvents, enableInputMethods, eventEnabled, firePropertyChange, getAccessibleIndexInParent, getAccessibleStateSet, getAlignmentX, getAlignmentY, getBackground, getBounds, getBounds, getColorModel, getComponentAt, getComponentAt, getComponentOrientation, getCursor, getDropTarget, getFont_NoClientCode, getFont, getFontMetrics, getForeground, getGraphics, getGraphicsConfiguration, getHeight, getInputContext, getInputMethodRequests, getListeners, getLocale, getLocation, getLocation, getLocationOnScreen_NoTreeLock, getLocationOnScreen, getMaximumSize, getName, getNativeContainer, getParent_NoClientCode, getParent, getPeer, getSize, getSize, getToolkit, getToolkitImpl, getTreeLock, getWidth, getWindowForObject, getX, getY, gotFocus, handleEvent, hasFocus, hide, imageUpdate, initIDs, inside, invalidate, isDisplayable, isDoubleBuffered, isEnabled, isEnabledImpl, isFocusTraversable, isLightweight, isOpaque, isRecursivelyVisible, isShowing, isValid, isVisible, keyDown, keyUp, layout, lightweightPaint, lightweightPrint, list, list, list, list, list, locate, location, lostFocus, minimumSize, mouseDown, mouseDrag, mouseEnter, mouseExit, mouseMove, mouseUp, move, nextFocus, numListening, paintAll, paintHeavyweightComponents, paramString, postEvent, preferredSize, prepareImage, prepareImage, print, printAll, printHeavyweightComponents, processComponentEvent, processEvent, processFocusEvent, processHierarchyBoundsEvent, processHierarchyEvent, processInputMethodEvent, processKeyEvent, processMouseEvent, processMouseMotionEvent, readObject, remove, removeComponentListener, removeFocusListener, removeHierarchyBoundsListener, removeHierarchyListener, removeInputMethodListener, removeKeyListener, removeMouseListener, removeMouseMotionListener, removeNotify, removePropertyChangeListener, removePropertyChangeListener, repaint, repaint, repaint, repaint, requestFocus, resetGC, reshape, resize, resize, setBackground, setBounds, setBounds, setComponentOrientation, setCursor, setDropTarget, setEnabled, setFont, setForeground, setLocale, setLocation, setLocation, setName, setSize, setSize, setVisible, show, show, size, toString, transferFocus, update, validate, writeObject

Methods inherited from class java.lang.Object

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

Field Detail

mae

MAExplorer mae

instance of MAExplorer so we can clear flags indicating the user did a manual quit()

ep

ExprProfile ep

expression profile for mid

MODE_LINE

static final int MODE_LINE

draw vertical bars

MODE_CIRCLE

static final int MODE_CIRCLE

draw circles for each entry

MODE_CURVE

static final int MODE_CURVE

draw continuous curve

MIN_CANVAS_WIDTH

static final int MIN_CANVAS_WIDTH

default canvas width size

MIN_CANVAS_HEIGHT

static final int MIN_CANVAS_HEIGHT

default canvas height size

TARGET_SIZE

static final int TARGET_SIZE

target Size for selecting a line

preferredHeight

public int preferredHeight

preferred canvas height size

preferredWidth

public int preferredWidth

preferred canvas width size

font

private static java.awt.Font font

titleFont

private static java.awt.Font titleFont

xCursor

int xCursor

event handler mouse X cursor coordinates

yCursor

int yCursor

event handler mouse Y cursor coordinates

fontHeight

private int fontHeight

height font size of current font

fontLeading

private int fontLeading

leading font size of current font

title

private java.lang.String title

ARG: opt. from user. If drawLabel

plotStyleMode

int plotStyleMode

plot mode style: 0=line, 1=circle, 2=curve

zoomBarsMag

int zoomBarsMag

zoom magnification: by 1X, 2X, 5X, 10X, 20X mod

showKmeansDataFlag

boolean showKmeansDataFlag

report K-means data else just CloneID & name

showErrBarsFlag

boolean showErrBarsFlag

draw error bars for each line

doMeanPlotsFlag

boolean doMeanPlotsFlag

mean else individual plots

didDataSetupFlag

boolean didDataSetupFlag

set by setupData() if successful

drawLabelsFlag

boolean drawLabelsFlag

ARG: draw labels for larger version

drawAdditionalDataFlag

boolean drawAdditionalDataFlag

draw title & additional data if larger format.

drawIntoImageFlag

boolean drawIntoImageFlag

set if draw plot to GIF file

oGifFileName

java.lang.String oGifFileName

full Gif file path name

Constructor Detail

ExprProfileCanvas

ExprProfileCanvas(MAExplorer mae,
                  int mid,
                  java.lang.String title,
                  java.awt.Font font,
                  int preferredWidth,
                  int preferredHeight,
                  boolean showKmeansDataFlag,
                  boolean drawLabelsFlag)

ExprProfileCanvas() - Constructor to display an expression profile in a canvas.

 If mid >=0, then display gene info
 If mid==-1, then display "request to click on a gene"
 If mid==-2, then don't draw anything.

Parameters:

mae - is the MAExplorer instance

mid - is the Master Gene Index if not -1

title - is the title for canvas label

font - is the overide labels font if not null

preferredWidth - is the canvas size, 0 to use defaults

preferredHeight -

showKmeansDataFlag - to draw K-means else gene data

drawLabelsFlag - if true

See Also:

ExprProfile.setupData(int)

Method Detail

drawGifFile

boolean drawGifFile(java.lang.String oGifFileName)

drawGifFile() - draw expression plot into Gif image file if in standalone mode. This sets it up and lets paint() to the heavy lifting...

Parameters:

oGifFileName - is the full path GIF output file

Returns:

false if unable to generate the image file.

See Also:

Component.repaint()

getPreferredSize

public java.awt.Dimension getPreferredSize()

getPreferredSize() - get the preferred size

Overrides:

getPreferredSize in class java.awt.Component

Returns:

window size

getMinimumSize

public java.awt.Dimension getMinimumSize()

getMinimumSize() - get the minimum preferred size

Overrides:

getMinimumSize in class java.awt.Component

Returns:

window size

updateData

boolean updateData(int mid,
                   java.lang.String title,
                   boolean drawLabelsFlag)

updateData() - update expression profile plot with new gene data. Only repaint if a legal gene MID.

Parameters:

mid - is the Master Gene Index if not -1

title - is the title for canvas label

drawLabelsFlag - if true

See Also:

ExprProfile.setupData(int), Component.repaint()

setPlotEPmeansData

void setPlotEPmeansData(int mid,
                        int hpDataNbr,
                        float maxHPdataMn,
                        float[] hpDataMn,
                        float[] hpDataSD,
                        boolean doMeanPlotsFlag)

setPlotEPmeansData() - set expression profile data so plot mean EP data.

Parameters:

mid - is the Master Gene Index if not -1

hpDataNbr - is the # HP-E members

maxHPdataMn - is the max value in vector

hpDataMn - is the Mean HP member quant data

hpDataSD - is the S.D. HP member quant data

doMeanPlotsFlag - if true

See Also:

ExprProfile.updateData(int), Component.repaint()

paint

public void paint(java.awt.Graphics g)

paint() - draw the expression profile in the canvas if a legal gene MID.

Overrides:

paint in class java.awt.Canvas

Parameters:

g - is graphics context

See Also:

CompositeDatabase.setObjCoordFromMID(int, java.lang.Object), PopupRegistry.chkOtherCurGeneEffects(int, int), SpotFeatures.showValidSpotInfo(java.awt.Point, MaHybridSample), Util.cvf2s(float, int), WriteGifEncoder, WriteGifEncoder.writeFile(java.lang.String), Component.repaint()