Package gov.nih.mipav.view

Class ViewJComponentColocalizationEM

java.lang.Object

java.awt.Component

java.awt.Container

javax.swing.JComponent

gov.nih.mipav.view.ViewJComponentBase

gov.nih.mipav.view.ViewJComponentColocalizationEM

All Implemented Interfaces:

ImageObserver, MenuContainer, Serializable

public class ViewJComponentColocalizationEM
extends ViewJComponentBase

DOCUMENT ME!

See Also:

• Serialized Form

Nested Class Summary

Nested classes/interfaces inherited from class javax.swing.JComponent

JComponent.AccessibleJComponent

Nested classes/interfaces inherited from class java.awt.Container

Container.AccessibleAWTContainer

Nested classes/interfaces inherited from class java.awt.Component

Component.AccessibleAWTComponent, Component.BaselineResizeBehavior, Component.BltBufferStrategy, Component.FlipBufferStrategy

Field Summary

Fields

Modifier and Type	Field	Description
private int	bin2	DOCUMENT ME!
private int	blue	DOCUMENT ME!
private int	bottomPad	DOCUMENT ME!
private int	brightness	DOCUMENT ME!
private float	contrast	DOCUMENT ME!
private ModelImage	destImage	DOCUMENT ME!
protected ViewJFrameBase	frame	frame - frame where the component image is displayed.
private int	green	DOCUMENT ME!
private double[]	halfMajor	DOCUMENT ME!
private double[]	halfMinor	DOCUMENT ME!
private boolean	haveFiltered	DOCUMENT ME!
protected ModelImage	imageA	imageA - model for image A.
protected ModelImage	imageB	imageB - model for image B.
private float[]	imageBufferDest	DOCUMENT ME!
private Image	imgDest	DOCUMENT ME!
protected int	interpMode	Creates histogram with ellipses around most prominent clusters.
private int	leftPad	DOCUMENT ME!
private boolean	logMagDisplay	DOCUMENT ME!
private int[]	lutBufferRemappedDest	DOCUMENT ME!
private ModelLUT	LUTdest	LUTa - lookup table for destImage.
private double	max1	DOCUMENT ME!
private double	max2	DOCUMENT ME!
private double[][]	mean	DOCUMENT ME!
private MemoryImageSource	memImageDest	DOCUMENT ME!
private double	min1	DOCUMENT ME!
private double	min2	DOCUMENT ME!
float	OPACITY	Opacity value used by the paint brush. value = 1.0 - opaque value = 0.25 - default (mostly see through)
private BitSet	paintBitmapDest	Buffer used to indicate if the pixel location is painted (true) or unpainted (false).
private int[]	paintBufferDest	Buffer that displays the combined paintBitmap and pixBuffer buffers.
private int[]	pixBufferDest	Buffer used to store ARGB images of the image presently being displayed.
private int	red	DOCUMENT ME!
private float	resX	DOCUMENT ME!
private float	resY	DOCUMENT ME!
protected ModelRGB	RGBTA	true if selected red, green, blue components present in RGB image.
protected ModelRGB	RGBTB	DOCUMENT ME!
private int	rightPad	DOCUMENT ME!
private double	scale1	DOCUMENT ME!
private double	scale2	DOCUMENT ME!
private static final long	serialVersionUID	Use serialVersionUID for interoperability.
private double[]	theta	DOCUMENT ME!
private int	topPad	DOCUMENT ME!
private boolean	useBlue	DOCUMENT ME!
private boolean	useGreen	DOCUMENT ME!
private boolean	useRed	DOCUMENT ME!
private float	zoomX	DOCUMENT ME!
private float	zoomY	DOCUMENT ME!

Fields inherited from class gov.nih.mipav.view.ViewJComponentBase

ANNOTATION, BOTH, CENTER_VOI, CUBE_BOUNDS, DEFAULT, DELETE_POINT, DROPPER_PAINT, ELLIPSE, ERASER_PAINT, IMAGE_A, IMAGE_B, imageDim, img, imgB, INTERPOLATE_A, INTERPOLATE_B, INTERPOLATE_BOTH, lastMouseX, lastMouseY, LEVELSET, LINE, LIVEWIRE, MAG_REGION, memImageA, memImageB, MOVE, MOVE_INTERSECTION_POINT, MOVE_POINT, MOVE_VOIPOINT, NEAREST_BOTH, NEW_POINT, NEW_VOI, OUT_OF_BOUNDS, PAINT_CAN, PAINT_VASC, PAINT_VOI, POINT_VOI, POLYLINE, POLYLINE_SLICE_VOI, PROBE, PROTRACTOR, QUICK_LUT, RECTANGLE, RECTANGLE3D, resolutionX, resolutionY, RETRACE, ROTATE, SELECT, showSliceNumber, sliceString, SMOOTH, SPLIT_VOI, textColor, TRANSLATE, VOI_3D, WAND, WIN_REGION, ZOOMING_IN, ZOOMING_OUT

Fields inherited from class javax.swing.JComponent

listenerList, TOOL_TIP_TEXT_KEY, ui, UNDEFINED_CONDITION, WHEN_ANCESTOR_OF_FOCUSED_COMPONENT, WHEN_FOCUSED, WHEN_IN_FOCUSED_WINDOW

Fields inherited from class java.awt.Component

accessibleContext, BOTTOM_ALIGNMENT, CENTER_ALIGNMENT, LEFT_ALIGNMENT, RIGHT_ALIGNMENT, TOP_ALIGNMENT

Fields inherited from interface java.awt.image.ImageObserver

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

Constructor Summary

Constructors

Constructor

Description

ViewJComponentColocalizationEM(ViewJFrameBase _frame, ModelImage _imageA, ModelImage _imageB, ModelImage destImage, ModelLUT LUTdest, float[] imageBufferDest, boolean useRed, boolean useGreen, boolean useBlue, double min1, double max1, double min2, double max2, double scale1, double scale2, int[] pixBufferDest, int[] paintBufferDest, float zoom, int[] extents, boolean logMagDisplay, int leftPad, int rightPad, int bottomPad, int topPad, double[][] mean, double[] halfMajor, double[] halfMinor, double[] theta)

Constructor: ImageA and ImageB are expected to be of the same dimensionality !!

Method Summary

Modifier and Type	Method	Description
boolean	buildImageDestObject(ModelLUT _LUTdest, boolean forceShow)	Shows the 2D histogram image.
void	dispose(boolean gcFlag)	Sets all variables to null, disposes, and garbage collects.
void	finalizeLocal()	Clean up some resources!
int	getblue()	Accessor that returns int blue.
int	getgreen()	Accessor that returns int green.
ModelImage	getImageA()	Accessor that returns the imageA.
ModelImage	getImageB()	Accessor that returns the imageB.
float	getOPACITY()	Accessor that returns float OPACITY.
BitSet	getpaintBitmapDest()	Accessor that returns BitSet paintBitmap.
Dimension	getPreferredSize()	Size set to object size.
int	getred()	Accessor that returns int red.
Dimension	getSize(Dimension wh)	Gets the size of the object taking into account the zoom.
float	getZoomX()	Magnification in the x - dimension.
float	getZoomY()	Magnification in the y - dimension.
void	importImageDest(int[] data)	Creates a Image object form an array of ints that have been formatted (packed) properly (i.e. aRGB)
void	paintComponent(Graphics g)	Paints the image and border.
void	setBrightness(int brightness, float contrast)	Method to set the brightness and contrast of the animate images.
void	setLogMagDisplay(boolean logMagDisplay)	DOCUMENT ME!
void	setPaintMaskDest(BitSet mask)	Accessor that sets the paint mask.
void	setRGBTA(ModelRGB RGBT)	Sets the RGB table for the ARGB image A.
void	setRGBTB(ModelRGB RGBT)	Sets the RGB table for the ARGB image B.
void	setZoom(float zX, float zY)	Sets the magnification in both x and y directions.
void	update()	Method to call paint without erasing background this reduces flicker!
void	update(Graphics g)	Method to call paint without erasing background this reduces flicker!

Methods inherited from class gov.nih.mipav.view.ViewJComponentBase

disposeLocal, finalize, getImage, getInterpMode, getLastMouseX, getLastMouseY, getResolutionX, getResolutionY, getScaledX, getScaledY, getSelectedPaintColor, getShowMagIntensityEnabled, importImage, importImageB, LocalToScreen, makePaintBitmapBorder, makePaintImage, paintCursorBoxComponent, paintWindowComponent, paintWindowComponent, ScreenToLocal, setInterpolationMode, setResolutions, setShowSliceNumber, setSliceString, setTextColor, setZoomExact

Methods inherited from class javax.swing.JComponent

addAncestorListener, addNotify, addVetoableChangeListener, computeVisibleRect, contains, createToolTip, disable, enable, firePropertyChange, firePropertyChange, firePropertyChange, fireVetoableChange, getActionForKeyStroke, getActionMap, getAlignmentX, getAlignmentY, getAncestorListeners, getAutoscrolls, getBaseline, getBaselineResizeBehavior, getBorder, getBounds, getClientProperty, getComponentGraphics, getComponentPopupMenu, getConditionForKeyStroke, getDebugGraphicsOptions, getDefaultLocale, getFontMetrics, getGraphics, getHeight, getInheritsPopupMenu, getInputMap, getInputMap, getInputVerifier, getInsets, getInsets, getListeners, getLocation, getMaximumSize, getMinimumSize, getNextFocusableComponent, getPopupLocation, getRegisteredKeyStrokes, getRootPane, getToolTipLocation, getToolTipText, getToolTipText, getTopLevelAncestor, getTransferHandler, getUI, getUIClassID, getVerifyInputWhenFocusTarget, getVetoableChangeListeners, getVisibleRect, getWidth, getX, getY, grabFocus, hide, isDoubleBuffered, isLightweightComponent, isManagingFocus, isOpaque, isOptimizedDrawingEnabled, isPaintingForPrint, isPaintingOrigin, isPaintingTile, isRequestFocusEnabled, isValidateRoot, paint, paintBorder, paintChildren, paintImmediately, paintImmediately, paramString, print, printAll, printBorder, printChildren, printComponent, processComponentKeyEvent, processKeyBinding, processKeyEvent, processMouseEvent, processMouseMotionEvent, putClientProperty, registerKeyboardAction, registerKeyboardAction, removeAncestorListener, removeNotify, removeVetoableChangeListener, repaint, repaint, requestDefaultFocus, requestFocus, requestFocus, requestFocusInWindow, requestFocusInWindow, resetKeyboardActions, reshape, revalidate, scrollRectToVisible, setActionMap, setAlignmentX, setAlignmentY, setAutoscrolls, setBackground, setBorder, setComponentPopupMenu, setDebugGraphicsOptions, setDefaultLocale, setDoubleBuffered, setEnabled, setFocusTraversalKeys, setFont, setForeground, setInheritsPopupMenu, setInputMap, setInputVerifier, setMaximumSize, setMinimumSize, setNextFocusableComponent, setOpaque, setPreferredSize, setRequestFocusEnabled, setToolTipText, setTransferHandler, setUI, setVerifyInputWhenFocusTarget, setVisible, unregisterKeyboardAction, updateUI

Methods inherited from class java.awt.Container

add, add, add, add, add, addContainerListener, addImpl, addPropertyChangeListener, addPropertyChangeListener, applyComponentOrientation, areFocusTraversalKeysSet, countComponents, deliverEvent, doLayout, findComponentAt, findComponentAt, getComponent, getComponentAt, getComponentAt, getComponentCount, getComponents, getComponentZOrder, getContainerListeners, getFocusTraversalKeys, getFocusTraversalPolicy, getLayout, getMousePosition, insets, invalidate, isAncestorOf, isFocusCycleRoot, isFocusCycleRoot, isFocusTraversalPolicyProvider, isFocusTraversalPolicySet, layout, list, list, locate, minimumSize, paintComponents, preferredSize, printComponents, processContainerEvent, processEvent, remove, remove, removeAll, removeContainerListener, setComponentZOrder, setFocusCycleRoot, setFocusTraversalPolicy, setFocusTraversalPolicyProvider, setLayout, transferFocusDownCycle, validate, validateTree

Methods inherited from class java.awt.Component

action, add, addComponentListener, addFocusListener, addHierarchyBoundsListener, addHierarchyListener, addInputMethodListener, addKeyListener, addMouseListener, addMouseMotionListener, addMouseWheelListener, bounds, checkImage, checkImage, coalesceEvents, contains, createImage, createImage, createVolatileImage, createVolatileImage, disableEvents, dispatchEvent, enable, enableEvents, enableInputMethods, firePropertyChange, firePropertyChange, firePropertyChange, firePropertyChange, firePropertyChange, firePropertyChange, getAccessibleContext, getBackground, getBounds, getColorModel, getComponentListeners, getComponentOrientation, getCursor, getDropTarget, getFocusCycleRootAncestor, getFocusListeners, getFocusTraversalKeysEnabled, getFont, getForeground, getGraphicsConfiguration, getHierarchyBoundsListeners, getHierarchyListeners, getIgnoreRepaint, getInputContext, getInputMethodListeners, getInputMethodRequests, getKeyListeners, getLocale, getLocation, getLocationOnScreen, getMouseListeners, getMouseMotionListeners, getMousePosition, getMouseWheelListeners, getName, getParent, getPropertyChangeListeners, getPropertyChangeListeners, getSize, getToolkit, getTreeLock, gotFocus, handleEvent, hasFocus, imageUpdate, inside, isBackgroundSet, isCursorSet, isDisplayable, isEnabled, isFocusable, isFocusOwner, isFocusTraversable, isFontSet, isForegroundSet, isLightweight, isMaximumSizeSet, isMinimumSizeSet, isPreferredSizeSet, isShowing, isValid, isVisible, keyDown, keyUp, list, list, list, location, lostFocus, mouseDown, mouseDrag, mouseEnter, mouseExit, mouseMove, mouseUp, move, nextFocus, paintAll, postEvent, prepareImage, prepareImage, processComponentEvent, processFocusEvent, processHierarchyBoundsEvent, processHierarchyEvent, processInputMethodEvent, processMouseWheelEvent, remove, removeComponentListener, removeFocusListener, removeHierarchyBoundsListener, removeHierarchyListener, removeInputMethodListener, removeKeyListener, removeMouseListener, removeMouseMotionListener, removeMouseWheelListener, removePropertyChangeListener, removePropertyChangeListener, repaint, repaint, repaint, requestFocus, requestFocus, requestFocusInWindow, resize, resize, setBounds, setBounds, setComponentOrientation, setCursor, setDropTarget, setFocusable, setFocusTraversalKeysEnabled, setIgnoreRepaint, setLocale, setLocation, setLocation, setMixingCutoutShape, setName, setSize, setSize, show, show, size, toString, transferFocus, transferFocusBackward, transferFocusUpCycle

Methods inherited from class java.lang.Object

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

Field Details

serialVersionUID

private static final long serialVersionUID

Use serialVersionUID for interoperability.

See Also:

• Constant Field Values

OPACITY

public float OPACITY

Opacity value used by the paint brush. value = 1.0 - opaque value = 0.25 - default (mostly see through)

frame

protected ViewJFrameBase frame

frame - frame where the component image is displayed.

imageA

protected ModelImage imageA

imageA - model for image A.

imageB

protected ModelImage imageB

imageB - model for image B.

interpMode

protected int interpMode

Creates histogram with ellipses around most prominent clusters.

RGBTA

protected ModelRGB RGBTA

true if selected red, green, blue components present in RGB image.

RGBTB

protected ModelRGB RGBTB

DOCUMENT ME!

bin2

private int bin2

DOCUMENT ME!

bottomPad

private int bottomPad

DOCUMENT ME!

brightness

private int brightness

DOCUMENT ME!

contrast

private float contrast

DOCUMENT ME!

destImage

private ModelImage destImage

DOCUMENT ME!

halfMajor

private double[] halfMajor

DOCUMENT ME!

halfMinor

private double[] halfMinor

DOCUMENT ME!

haveFiltered

private boolean haveFiltered

DOCUMENT ME!

imageBufferDest

private float[] imageBufferDest

DOCUMENT ME!

imgDest

private Image imgDest

DOCUMENT ME!

leftPad

private int leftPad

DOCUMENT ME!

logMagDisplay

private boolean logMagDisplay

DOCUMENT ME!

lutBufferRemappedDest

private int[] lutBufferRemappedDest

DOCUMENT ME!

LUTdest

private ModelLUT LUTdest

LUTa - lookup table for destImage.

mean

private double[][] mean

DOCUMENT ME!

memImageDest

private MemoryImageSource memImageDest

DOCUMENT ME!

min1

private double min1

DOCUMENT ME!

max1

private double max1

DOCUMENT ME!

min2

private double min2

DOCUMENT ME!

max2

private double max2

DOCUMENT ME!

paintBitmapDest

private BitSet paintBitmapDest

Buffer used to indicate if the pixel location is painted (true) or unpainted (false).

paintBufferDest

private int[] paintBufferDest

Buffer that displays the combined paintBitmap and pixBuffer buffers.

pixBufferDest

private int[] pixBufferDest

Buffer used to store ARGB images of the image presently being displayed.

red

private int red

DOCUMENT ME!

green

private int green

DOCUMENT ME!

blue

private int blue

DOCUMENT ME!

resX

private float resX

DOCUMENT ME!

resY

private float resY

DOCUMENT ME!

rightPad

private int rightPad

DOCUMENT ME!

scale1

private double scale1

DOCUMENT ME!

scale2

private double scale2

DOCUMENT ME!

theta

private double[] theta

DOCUMENT ME!

topPad

private int topPad

DOCUMENT ME!

useBlue

private boolean useBlue

DOCUMENT ME!

useGreen

private boolean useGreen

DOCUMENT ME!

useRed

private boolean useRed

DOCUMENT ME!

zoomX

private float zoomX

DOCUMENT ME!

zoomY

private float zoomY

DOCUMENT ME!

Constructor Details

ViewJComponentColocalizationEM

public ViewJComponentColocalizationEM(ViewJFrameBase _frame,
 ModelImage _imageA,
 ModelImage _imageB,
 ModelImage destImage,
 ModelLUT LUTdest,
 float[] imageBufferDest,
 boolean useRed,
 boolean useGreen,
 boolean useBlue,
 double min1,
 double max1,
 double min2,
 double max2,
 double scale1,
 double scale2,
 int[] pixBufferDest,
 int[] paintBufferDest,
 float zoom,
 int[] extents,
 boolean logMagDisplay,
 int leftPad,
 int rightPad,
 int bottomPad,
 int topPad,
 double[][] mean,
 double[] halfMajor,
 double[] halfMinor,
 double[] theta)

Constructor: ImageA and ImageB are expected to be of the same dimensionality !!

Parameters:

_frame - frame where the controls are obtained

_imageA - Model of the image that will be displayed

_imageB - Model of the image that will be displayed

destImage - Image with histogram information

LUTdest - LUT used to display destImage

imageBufferDest - storage buffer used to display destImage

useRed - DOCUMENT ME!

useGreen - DOCUMENT ME!

useBlue - DOCUMENT ME!

min1 - DOCUMENT ME!

max1 - DOCUMENT ME!

min2 - DOCUMENT ME!

max2 - DOCUMENT ME!

scale1 - DOCUMENT ME!

scale2 - DOCUMENT ME!

pixBufferDest - storage buffer used to build a displayable image

paintBufferDest - DOCUMENT ME!

zoom - initial magnification of image

extents - initial display dimensions of the image

logMagDisplay - display log magnitude of image

leftPad - DOCUMENT ME!

rightPad - DOCUMENT ME!

bottomPad - DOCUMENT ME!

topPad - DOCUMENT ME!

mean - DOCUMENT ME!

halfMajor - DOCUMENT ME!

halfMinor - DOCUMENT ME!

theta - DOCUMENT ME!

Method Details

buildImageDestObject

public boolean buildImageDestObject(ModelLUT _LUTdest,
 boolean forceShow)

Shows the 2D histogram image.

Parameters:

_LUTdest - LUTdest - to change to new LUT for imageA else null

forceShow - forces this method to import image and recalculate java image

Returns:

boolean to indicate if the show was successful

dispose

public void dispose(boolean gcFlag)

Sets all variables to null, disposes, and garbage collects.

Overrides:

dispose in class ViewJComponentBase

Parameters:

gcFlag - if true garbage collector should be called.

finalizeLocal

public void finalizeLocal()

Clean up some resources!

getblue

public int getblue()

Accessor that returns int blue.

Returns:

blue

getgreen

public int getgreen()

Accessor that returns int green.

Returns:

green

getImageA

public ModelImage getImageA()

Accessor that returns the imageA.

Returns:

imageA

getImageB

public ModelImage getImageB()

Accessor that returns the imageB.

Returns:

imageB

getOPACITY

public float getOPACITY()

Accessor that returns float OPACITY.

Returns:

OPACITY

getpaintBitmapDest

public BitSet getpaintBitmapDest()

Accessor that returns BitSet paintBitmap.

Returns:

paintBitmap

getPreferredSize

public Dimension getPreferredSize()

Size set to object size.

Overrides:

getPreferredSize in class ViewJComponentBase

Returns:

dimension with the size

getred

public int getred()

Accessor that returns int red.

Returns:

red

getSize

public Dimension getSize(Dimension wh)

Gets the size of the object taking into account the zoom.

Overrides:

getSize in class ViewJComponentBase

Parameters:

wh - dimension

Returns:

dimension with the size

getZoomX

public float getZoomX()

Magnification in the x - dimension.

Overrides:

getZoomX in class ViewJComponentBase

Returns:

magnificaiton in the x - dimension

getZoomY

public float getZoomY()

Magnification in the y - dimension.

Overrides:

getZoomY in class ViewJComponentBase

Returns:

magnificaiton in the y - dimension

importImageDest

public void importImageDest(int[] data)

Creates a Image object form an array of ints that have been formatted (packed) properly (i.e. aRGB)

Parameters:

data - Data (image) to be displayed that has been formatted (packed) properly (i.e. aRGB)

paintComponent

public void paintComponent(Graphics g)

Paints the image and border.

Overrides:

paintComponent in class ViewJComponentBase

Parameters:

g - Graphics handle

setBrightness

public void setBrightness(int brightness,
 float contrast)

Method to set the brightness and contrast of the animate images.

Parameters:

brightness - int going from -255 to 255

contrast - float scale factor

setLogMagDisplay

public void setLogMagDisplay(boolean logMagDisplay)

DOCUMENT ME!

Parameters:

logMagDisplay - DOCUMENT ME!

setPaintMaskDest

public void setPaintMaskDest(BitSet mask)

Accessor that sets the paint mask.

Parameters:

mask - DOCUMENT ME!

setRGBTA

public void setRGBTA(ModelRGB RGBT)

Sets the RGB table for the ARGB image A.

Parameters:

RGBT - RGB table

setRGBTB

public void setRGBTB(ModelRGB RGBT)

Sets the RGB table for the ARGB image B.

Parameters:

RGBT - RGB table

setZoom

public void setZoom(float zX,
 float zY)

Sets the magnification in both x and y directions.

Overrides:

setZoom in class ViewJComponentBase

Parameters:

zX - zoom in the x direction

zY - zoom in the y direction

update

public void update()

Method to call paint without erasing background this reduces flicker!

update

public void update(Graphics g)

Method to call paint without erasing background this reduces flicker!

Overrides:

update in class ViewJComponentBase

Parameters:

g - Graphics handle