Package gov.nih.mipav.view

Class ViewJFrameImage

java.lang.Object

java.awt.Component

java.awt.Container

java.awt.Window

java.awt.Frame

javax.swing.JFrame

gov.nih.mipav.view.ViewJFrameBase

gov.nih.mipav.view.ViewJFrameImage

All Implemented Interfaces:

VOIManagerInterfaceListener, ViewImageUpdateInterface, ViewOpenFrameInterface, ActionListener, ComponentListener, KeyListener, MouseListener, MouseMotionListener, WindowListener, ImageObserver, MenuContainer, Serializable, EventListener, Accessible, ChangeListener, RootPaneContainer, WindowConstants

Direct Known Subclasses:

ViewJFrameFastMarching2, ViewJFrameFastMarching3

public class ViewJFrameImage
extends ViewJFrameBase
implements KeyListener, MouseListener, MouseMotionListener, ViewOpenFrameInterface, VOIManagerInterfaceListener

Makes a frame and put a single image component into it.

Version:

1.0 Sept 28, 1998

Author:

Matthew J. McAuliffe, Ph.D.

See Also:

• ViewJComponentEditImage
• Serialized Form

Nested Class Summary

Nested Classes

Modifier and Type	Class	Description
private class	ViewJFrameImage.DicomQueryListener
(package private) class	ViewJFrameImage.OkColorListener	Pick up the selected color and call method to change the VOI color.

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

JFrame.AccessibleJFrame

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

Frame.AccessibleAWTFrame

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

Window.AccessibleAWTWindow, Window.Type

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 ViewJColorChooser	colorChooser	Reference to the color chooser.
protected ViewJComponentEditImage	componentImage	Object where DICOM image, ... is converted and displayed as a Java image
protected ViewControlsImage	controls	Reference to the toolbars located in the controls object.
private final boolean	doOrients	DOCUMENT ME!
private final boolean	doOrigins	When loading an image into B slot, should origins and orients be matched?
private JDialogDataProvenance	dpDialog	Data provenance dialog
private JDialogGridOptions	gridOptions	Only want one gridoptions dialog per jframeimage.
protected float	heightResFactor	Storage for correction parameters where datasets have non isotropic values.
protected float[]	imageBufferA	Buffer used to store image intensities the presently viewed slice of image A.
protected float[]	imageBufferB	Buffer used to store image intensities the presently viewed slice of image B.
protected JDialogImageInfo	infoDialogA	reference to the JDialogImageInfo for updating slice/resolutions.
protected JDialogImageInfo	infoDialogB	DOCUMENT ME!
private boolean	isShiftDown	boolean indicating if shift button is down.
protected boolean	logMagDisplay	Flag indicating whether or not that the image should be displayed in Log scale.
protected JMenuBar	menuBar	Reference to the frame's menu bar.
protected ViewMenuBar	menuBarMaker	Constructs the image menu bar.
protected ViewMenuBuilder	menuBuilder	This object contains a number of useful functions for building a menu and querying the state of menu items.
protected JDialogMultiPaint	multipaintDialog	reference to the JDialogMultiPaint for shortcuts
protected int	nImage	Number of slices in a 3D dataset.
protected int	nTImage	Number of time sequences in a 4D dataset.
private boolean	paintBrushLocked	used in conjuction with the above variable, stating that the paint brush has been changed but will change back to previous.
protected int[]	pixBuffer	Integer buffer (4 bytes that stores the concatenated Alpha (1 byte), Red (1 byte), Green ( 1 byte ), Blue (1 byte ) data.
protected int[]	pixBufferB	Integer buffer (4 bytes that stores the concatenated Alpha (1 byte), Red (1 byte), Green ( 1 byte ), Blue (1 byte ) data.
private JDialogAAMClassification	prostateAAMClassification
private JDialogAAMplusSVM	prostateML
private int	quickPaintBrushIndex	DOCUMENT ME!
protected float[]	resols	Storage of the image voxel resolutions.
protected JScrollPane	scrollPane	The scrollPane where the image is displayed.
private static final long	serialVersionUID	Use serialVersionUID for interoperability.
protected int[]	units	Storage of the resolution units of measure.
protected ButtonGroup	VOIGroup
protected VOIManagerInterface	voiManager
protected JMenu	voiMenu
protected float	widthResFactor	Storage for correction parameters where datasets have non isotropic values.
protected JDialogWinLevel[]	windowLevel	Reference to the two window and level dialogs where [0] is for imageA, [1] for imageB.
protected static final int	xScreen	Width of the display screen.
protected static final int	yScreen	Height of the display screen.
protected float	zoom	Defaults magnification of image to 1.
private JDialogZoom	zoomDialog	Reference to the magnification tool.

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

absoluteGoToButton, absoluteGoToPanel, absoluteLabel, absoluteLabelVals, absolutePanel, absoluteXLabel, absoluteXTextField, absoluteYLabel, absoluteYTextField, absoluteZLabel, absoluteZTextField, alphaBlend, defaultLUTa, defaultLUTb, displayMode, IMAGE_A, IMAGE_A_B, IMAGE_B, imageA, imageB, isClosing, linkedScrolling, linkFrame, linkTriFrame, LUTa, LUTb, progressBar, scannerLPS_APLabel, scannerLPS_APTextField, scannerLPS_GoToButton, scannerLPS_GoToPanel, scannerLPS_ISLabel, scannerLPS_ISTextField, scannerLPS_RLLabel, scannerLPS_RLTextField, scannerLPSLabel, scannerLPSLabelVals, scannerLPSPanel, scannerRAS_APLabel, scannerRAS_APTextField, scannerRAS_GoToButton, scannerRAS_GoToPanel, scannerRAS_ISLabel, scannerRAS_ISTextField, scannerRAS_RLLabel, scannerRAS_RLTextField, scannerRASLabel, scannerRASLabelVals, scannerRASPanel, scannerTabbedPane, tabbedPane, talGoToButton, talGoToPanel, talXLabel, talXTextField, talYLabel, talYTextField, talZLabel, talZTextField, userInterface, zoomMode

Fields inherited from class javax.swing.JFrame

accessibleContext, rootPane, rootPaneCheckingEnabled

Fields inherited from class java.awt.Frame

CROSSHAIR_CURSOR, DEFAULT_CURSOR, E_RESIZE_CURSOR, HAND_CURSOR, ICONIFIED, MAXIMIZED_BOTH, MAXIMIZED_HORIZ, MAXIMIZED_VERT, MOVE_CURSOR, N_RESIZE_CURSOR, NE_RESIZE_CURSOR, NORMAL, NW_RESIZE_CURSOR, S_RESIZE_CURSOR, SE_RESIZE_CURSOR, SW_RESIZE_CURSOR, TEXT_CURSOR, W_RESIZE_CURSOR, WAIT_CURSOR

Fields inherited from class java.awt.Component

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

Fields inherited from interface javax.swing.WindowConstants

DISPOSE_ON_CLOSE, DO_NOTHING_ON_CLOSE, EXIT_ON_CLOSE, HIDE_ON_CLOSE

Constructor Summary

Constructors

Constructor	Description
ViewJFrameImage(ModelImage _imageA)	Makes a frame and puts an image into it.
ViewJFrameImage(ModelImage _imageA, ModelImage _imageB)	Makes a frame and puts an image component into it, does not display the frame through ViewJFrameImage's init() method.
ViewJFrameImage(ModelImage _imageA, ModelLUT LUTa)	Makes a frame and puts an image into it.
ViewJFrameImage(ModelImage _imageA, ModelLUT LUTa, Dimension loc)	Makes a frame and puts an image component into it.
ViewJFrameImage(ModelImage _imageA, ModelLUT LUTa, Dimension loc, boolean logMagDisplay)	Makes a frame and puts an image component into it.
ViewJFrameImage(ModelSimpleImage simpleImage, String name)	Constructs a ModelSimpleImage VJF

Method Summary

Modifier and Type	Method	Description
private void	aamClassification()
private void	aamGroupRename()
private void	aamGroups()
private void	aamMLClassification()
void	about()	Makes an aboutDialog box and displays information of the image plane presently being displayed.
void	actionPerformed(ActionEvent event)	calls various methods depending on the action.
void	addSphereVOIs(VOI annotations)
private void	adjustScrollbars(int x, int y)	DOCUMENT ME!
void	changeMenuEnables()	Routine to enable some menu items and disable othter menu items when the dimensionality or type of the image is changed.
private boolean	checkForActiveVOIs()
void	close()	Closes window and disposes of frame and component.
void	close(boolean closeAll, boolean recordScriptAction)	Closes window and disposes of frame and component.
void	collapseAlltoSinglePaint(boolean showProgressBar)	This method is provided for the user to convert a masked area back to a painted area.
void	componentResized(ComponentEvent event)	Resizes frame and all components.
protected void	computeIdealWindowSize()	private void computeIdealWindowSize() This method will enlarge or shrink the window size in response to the componentImage being zoomed.
private void	convertVOITBI()
void	create3DVOI(boolean bIntersection)
protected int[]	createBuffers()	Create the buffers for imageA and imageB.
void	decSlice()	Decreases the slice to be displayed by one and updates title frame.
void	decSliceEyeTracker()
private void	deepCNNConvert()
private void	deepCNNMap()
private void	deepCNNTest()
private void	deepCNNTrain()
private void	deepKneesAtlas()
private void	deepKneesMap()
void	doLinkedScrolling(int offset)
void	enableImageB(boolean enable)	Quick and simple way for ViewJFrameBase to tell the ViewJFrameImage it created to set the menu (right now only for 2Dimensional) for image B.
private void	extractCEFeature()
void	finalize()	Cleans memory.
private void	generateAtlasImage()	Read the 3D atlas images directory, convert each 3D image to 2D slices based atlas.
private void	generateEndingSlices()
ModelImage	getActiveImage()	Returns the reference to the currently active image.
protected JDialogImageInfo	getActiveImageInfoDialog()	Returns a reference to the image info dialog for the active image.
ModelLUT	getActiveLUT()
ModelRGB	getActiveRGB()
float	getAlphaBlend()	Returns the alphaBlend value for blending between imageA and imageB.
WildMagic.LibFoundation.Mathematics.Vector3f	getCenterPt()
ViewJComponentEditImage	getComponentImage()	Returns the reference to the component image.
ViewControlsImage	getControls()	Get control widgets (toolbars, sliders) for the image frame.
JFrame	getFrame()
int	getFrameHeight()	Return the height that the frame should have.
int[]	getFrameLandMarkPoints()	Get the frame four corner landmark points.
Dimension	getFrameSize()	Return the preferred size for the frame.
Dimension	getFrameSize(Dimension size)	Return the preferred size for the frame.
int	getFrameWidth()	Return the width that the frame should have.
ModelImage	getImageA()	Returns the reference to imageA.
ModelImage	getImageB()	Returns the reference to imageB.
protected JDialogImageInfo	getImageInfoDialogB()	Returns the image info dialog for image B.
JMenuBar	getJMenuBar()
Vector<ModelImage>	getRegisteredFramedImages(ModelImage activeImage)	Returns the Vector of Registered Framed Images that are of the same number of dimensions as the active image and same extents for dimesions 3, 4, and 5.
Vector<ModelImage>	getRegisteredFramedImages4D3D(ModelImage activeImage)	If active image is 4D, this returns all 3d images that have same x,y,and z dimensionality as the 4d image
int	getRegisteredFramedImagesSize()	Returns the size of the RegisteredFramedImages Vector.
ModelRGB	getRGBTA()	Gets the RGB LUT table for ARGB image A.
ModelRGB	getRGBTB()	Gets the RGB LUT table for ARGB image B.
JScrollPane	getScrollPane()	DOCUMENT ME!
protected int	getScrollPaneHeight()	Get the height of the scroll pane holding the component image.
protected Dimension	getScrollPaneSize()	Get the size of the scroll pane holding the component image.
Dimension	getScrollPaneSize(Dimension size)	Return the preferred size for the component image scroll pane.
protected int	getScrollPaneWidth()	Get the width of the scroll pane holding the component image.
int	getViewableSlice()	Get the top-most slice.
int	getViewableTimeSlice()	Gets the current Time slice which is being viewed.
ViewMenuBar	getViewMenuBar()
VOIManagerInterface	getVOIManager()
boolean	handleMaskToPaint(boolean showProgressBar)	This method is provided for the user to convert a masked area back to a painted area.
private void	hedCNNMap()
void	incSlice()	Increases the slice to be displayed by one and updates title frame.
void	incSliceEyeTracker()
private void	init(ModelLUT LUTa, Dimension loc, boolean logMagDisplay)	Initializes the frame and variables.
protected void	initComponentImage(int[] extents)	Creates and initializes the component image for the given image.
void	initExtentsVariables(ModelImage img)	Initializes the variables based on the image extents.
protected void	initLUT()	Creates and initializes the LUT for the first image (imageA) if it hasn't been already.
void	initResolutions()	Initializes the resolutions and units from the image.
protected void	initVOI()	Initialize the 3D VOI interface.
void	initZoom()	Initializes the zoom variables for the first image (imageA).
private boolean	isMultipleImages()	Helper method to establish if there are other images so that a dialog can be created.
private boolean	isMultipleSameSizeImages(boolean isForCalculator)	Helper method to establish if there are images of the same dimensionality so that a dialog can be created.
void	keyPressed(KeyEvent e)	********************************************************************* **************************** Key Events *** **************************
void	keyReleased(KeyEvent e)	DOCUMENT ME!
void	keyTyped(KeyEvent e)	DOCUMENT ME!
private void	loadProstateMask()
protected String	makeTitle()	Constructs the title of the frame with the image name and the slice location.
void	maskToPaint()
void	mouseClicked(MouseEvent event)	DOCUMENT ME!
void	mouseDragged(MouseEvent e)	DOCUMENT ME!
void	mouseEntered(MouseEvent event)	DOCUMENT ME!
void	mouseExited(MouseEvent event)	DOCUMENT ME!
void	mouseMoved(MouseEvent e)	DOCUMENT ME!
void	mousePressed(MouseEvent event)	DOCUMENT ME!
void	mouseReleased(MouseEvent event)	DOCUMENT ME!
ViewJFrameImage	openFrame(ModelImage image)	ViewOpenFrameInterface function to create a new frame from a result image (jdialog produced)
void	paintToShortMask()
void	paintToUbyteMask()
void	PointerActive(boolean bActive)
void	printImage()	Method to send an image to the printer.
private void	propagatePaintToAllSlices()	DOCUMENT ME!
private void	propagatePaintToNextSlice()	DOCUMENT ME!
private void	propagatePaintToPreviousSlice()	DOCUMENT ME!
WildMagic.LibFoundation.Mathematics.Vector3f	PropDown(int iActive)
WildMagic.LibFoundation.Mathematics.Vector3f	PropUp(int iActive)
private void	prostateSemiAutoBSpline()
private void	prostateSemiAutoBSplineFuzzyC()
private void	reconstructSurfaceFromVOIs()	Reconstruct the prostate surface from the coarse VOIs cloudy points.
void	removeComponentListener()
void	removeControls()	Removes the menu and controls of the main frame so that a new frame can load the main frame with the proper controls.
void	removeKeyListener()
void	removeMouseListener()
void	removeMouseMotionListener()
void	removeWindowListener()
void	saveImageInfo()	Saves the image info; need to do before saving image.
private void	saveMergedVOIs()	This method merges the 3 axial, sagittal, coronal VOIs and save them into one cloudy points file.
private void	saveProstateBoundaryFeature()
private void	saveProstateFeatures()
private void	saveProstateFeatures2D()
void	setActiveImage(int active)	Sets the active image for drawing VOIs.
void	setActiveImage(ModelImage kImage)
void	setAlphaBlend(int value)	Sets the alpha blending of parameter for two image displaying.
boolean	setAndLoad(ModelImage image2load)	DOCUMENT ME!
boolean	setAndLoad(ModelImage image2load, boolean doOrigins, boolean doOrients, double defaultValue, double defaultRed, double defaultGreen, double defaultBlue)	DOCUMENT ME!
void	setCenter(WildMagic.LibFoundation.Mathematics.Vector3f kCenter)
void	setControls()	Sets the menu and controls (i.e. toolbars) of the main frame!
void	setCursor(Cursor kCursor)
void	setEnabled(boolean flag)	Controls whether or not the images/VOIs of the frame can be modified.
void	setImageB(ModelImage _imageB)	Sets the reference to imageB.
void	setLUTa(ModelLUT LUT)	Sets the LUT for image A.
void	setLUTb(ModelLUT LUT)	Sets the LUT for image B.
void	setModified()
void	setOutputWindowBox(boolean isShown)	Updates the checkbox to show whether or not the output window is currently displayed.
void	setPaintBitmapSwitch(boolean paintBitmapSwitch)	When switching the active image, copy the paintBitmap of the previous active image into the paintBitmap of the new active image.
void	setPaintMask(BitSet mask)
void	setRGBTA(ModelRGB RGBT)	Sets the RGB LUT table for ARGB image A.
void	setRGBTB(ModelRGB RGBT)	Sets the RGB LUT table for ARGB image B.
void	setShiftDown(boolean isShiftDown)	DOCUMENT ME
void	setSlice(int slice)	Sets the slice to be displayed and updates title frame.
void	setSlice(int slice, boolean updateLinkedImages)	DOCUMENT ME!
void	setTimeSlice(int slice)	Sets the slice to be displayed and updates title frame.
void	setTimeSlice(int slice, boolean checkScroll)	Sets the slice to be displayed and updates title frame.
void	setTitle()	Sets the title of the frame with the image name and the slice location.
boolean	setZoomB()	Sets the magnification of Image B.
void	setZoomDialogNull()	Sets the magnification dialog to null.
void	showEditImageInfo()	DOCUMENT ME!
void	stateChanged(ChangeEvent event)	DOCUMENT ME!
private void	surfaceReconstructionTBI()
protected boolean	testParameter(String str, double minValue, double maxValue)	Tests that the entered parameter is in range.
private void	testProstateBoundaryFeatureTrain()
void	testProstateFeatures()
private void	testProstateFeatures2D()
private void	testProstateFeaturesClassification()
private void	testProstateFeaturesTrain()
void	triPlanarClosing()	DOCUMENT ME!
void	updateData()
void	updateFrame(float sX, float sY)	Updates the this frame's size the components sizes.
void	updateFrame(float sX, float sY, int x, int y)	public void updateFrame(float xZoom, float yZoom, int x, int y) This method is called when the user is zooming in or out.
protected void	updateHistoLUTFrame(int imageAorB)	Deprecated.
protected void	updateHistoLUTFrame(int imageAorB, ViewJComponentEditImage compImg)	Deprecated.
protected void	updateHistoRGBFrame(int imageAorB)	Deprecated.
protected void	updateHistoRGBFrame(int imageAorB, ViewJComponentEditImage compImg)	Deprecated.
boolean	updateImageExtents()	This methods calls the componentImage's REPAINT method to redraw the screen.
boolean	updateImages()	This methods calls the componentImage's update method to redraw the screen - fastest of the three update methods.
boolean	updateImages(boolean forceShow)	This methods calls the componentImage's update method to redraw the screen.
boolean	updateImages(boolean forceShow, int interpMode)	This methods calls the componentImage's update method to redraw the screen.
boolean	updateImages(ModelLUT LUTa, ModelLUT LUTb, boolean forceShow, int interpMode)	This methods calls the componentImage's update method to redraw the screen.
void	updateMenubar()	This method updates the menubar; ie: after an image has been opened.
void	updateWinLevel(int min, int max)	Update the window level sliders from the CT preset dialog.
void	windowClosing(WindowEvent event)	Closes window and disposes of frame and component.

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

about, buildLabelPanel, canCloseImageBAfterLoad, close, closeImageB, componentHidden, componentMoved, componentShown, getDefaultLUTa, getDefaultLUTb, getDisplayMode, getImageNameA, getImageNameB, getLastState, getLUTa, getLUTb, getTriImg, getUserInterface, handleMaskPopupMenu, handlePaintToMaskPopupMenu, handleZoomPopupMenu, initExtents, initImageBuffer, initLUT, initNumSlices, initPixelBuffer, initResFactor, initResolutions, initRGB, initSlicePositions, initUnits, initZoom, loadAllVOIs, loadAllVOIsFrom, loadImage, loadLUT, loadLUTandTransferFunctionFrom, loadLUTandTransferFunctionFrom, makeString, newFrameBeenCreated, openVOI, openVOI, pickImageFile, save, save, save, saveAllVOIs, saveAllVOIsTo, saveLabels, saveLUT, saveLUTandTransferFunction, saveLUTandTransferFunction, saveLUTAs, saveLUTAs, saveVOI, saveVOIAs, saveVOIAs, saveVOIIntensities, saveVOIIntensitiesTo, setAbsPositionLabels, setEnableCloseImageBAfterLoad, setImageA, setLastState, setLinkedFrame, setLinkedTriFrame, setLUTs, setMessageText, setOpacityInfo, setpaintBitmap, setScannerPosition, windowActivated, windowClosed, windowDeactivated, windowDeiconified, windowIconified, windowOpened

Methods inherited from class javax.swing.JFrame

addImpl, createRootPane, frameInit, getAccessibleContext, getContentPane, getDefaultCloseOperation, getGlassPane, getGraphics, getLayeredPane, getRootPane, getTransferHandler, isDefaultLookAndFeelDecorated, isRootPaneCheckingEnabled, paramString, processWindowEvent, remove, repaint, setContentPane, setDefaultCloseOperation, setDefaultLookAndFeelDecorated, setGlassPane, setIconImage, setJMenuBar, setLayeredPane, setLayout, setRootPane, setRootPaneCheckingEnabled, setTransferHandler, update

Methods inherited from class java.awt.Frame

addNotify, getCursorType, getExtendedState, getFrames, getIconImage, getMaximizedBounds, getMenuBar, getState, getTitle, isResizable, isUndecorated, remove, removeNotify, setBackground, setCursor, setExtendedState, setMaximizedBounds, setMenuBar, setOpacity, setResizable, setShape, setState, setTitle, setUndecorated

Methods inherited from class java.awt.Window

addPropertyChangeListener, addPropertyChangeListener, addWindowFocusListener, addWindowListener, addWindowStateListener, applyResourceBundle, applyResourceBundle, createBufferStrategy, createBufferStrategy, dispose, getBackground, getBufferStrategy, getFocusableWindowState, getFocusCycleRootAncestor, getFocusOwner, getFocusTraversalKeys, getIconImages, getInputContext, getListeners, getLocale, getModalExclusionType, getMostRecentFocusOwner, getOpacity, getOwnedWindows, getOwner, getOwnerlessWindows, getShape, getToolkit, getType, getWarningString, getWindowFocusListeners, getWindowListeners, getWindows, getWindowStateListeners, hide, isActive, isAlwaysOnTop, isAlwaysOnTopSupported, isAutoRequestFocus, isFocusableWindow, isFocusCycleRoot, isFocused, isLocationByPlatform, isOpaque, isShowing, isValidateRoot, pack, paint, postEvent, processEvent, processWindowFocusEvent, processWindowStateEvent, removeWindowFocusListener, removeWindowListener, removeWindowStateListener, reshape, setAlwaysOnTop, setAutoRequestFocus, setBounds, setBounds, setFocusableWindowState, setFocusCycleRoot, setIconImages, setLocation, setLocation, setLocationByPlatform, setLocationRelativeTo, setMinimumSize, setModalExclusionType, setSize, setSize, setType, setVisible, show, toBack, toFront

Methods inherited from class java.awt.Container

add, add, add, add, add, addContainerListener, applyComponentOrientation, areFocusTraversalKeysSet, countComponents, deliverEvent, doLayout, findComponentAt, findComponentAt, getAlignmentX, getAlignmentY, getComponent, getComponentAt, getComponentAt, getComponentCount, getComponents, getComponentZOrder, getContainerListeners, getFocusTraversalPolicy, getInsets, getLayout, getMaximumSize, getMinimumSize, getMousePosition, getPreferredSize, insets, invalidate, isAncestorOf, isFocusCycleRoot, isFocusTraversalPolicyProvider, isFocusTraversalPolicySet, layout, list, list, locate, minimumSize, paintComponents, preferredSize, print, printComponents, processContainerEvent, remove, removeAll, removeContainerListener, setComponentZOrder, setFocusTraversalKeys, setFocusTraversalPolicy, setFocusTraversalPolicyProvider, setFont, 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, contains, createImage, createImage, createVolatileImage, createVolatileImage, disable, disableEvents, dispatchEvent, enable, enable, enableEvents, enableInputMethods, firePropertyChange, firePropertyChange, firePropertyChange, firePropertyChange, firePropertyChange, firePropertyChange, firePropertyChange, firePropertyChange, firePropertyChange, getBaseline, getBaselineResizeBehavior, getBounds, getBounds, getColorModel, getComponentListeners, getComponentOrientation, getCursor, getDropTarget, getFocusListeners, getFocusTraversalKeysEnabled, getFont, getFontMetrics, getForeground, getGraphicsConfiguration, getHeight, getHierarchyBoundsListeners, getHierarchyListeners, getIgnoreRepaint, getInputMethodListeners, getInputMethodRequests, getKeyListeners, getLocation, getLocation, getLocationOnScreen, getMouseListeners, getMouseMotionListeners, getMousePosition, getMouseWheelListeners, getName, getParent, getPropertyChangeListeners, getPropertyChangeListeners, getSize, getSize, getTreeLock, getWidth, getX, getY, gotFocus, handleEvent, hasFocus, imageUpdate, inside, isBackgroundSet, isCursorSet, isDisplayable, isDoubleBuffered, isEnabled, isFocusable, isFocusOwner, isFocusTraversable, isFontSet, isForegroundSet, isLightweight, isMaximumSizeSet, isMinimumSizeSet, isPreferredSizeSet, isValid, isVisible, keyDown, keyUp, list, list, list, location, lostFocus, mouseDown, mouseDrag, mouseEnter, mouseExit, mouseMove, mouseUp, move, nextFocus, paintAll, prepareImage, prepareImage, printAll, processComponentEvent, processFocusEvent, processHierarchyBoundsEvent, processHierarchyEvent, processInputMethodEvent, processKeyEvent, processMouseEvent, processMouseMotionEvent, processMouseWheelEvent, removeComponentListener, removeFocusListener, removeHierarchyBoundsListener, removeHierarchyListener, removeInputMethodListener, removeKeyListener, removeMouseListener, removeMouseMotionListener, removeMouseWheelListener, removePropertyChangeListener, removePropertyChangeListener, repaint, repaint, repaint, requestFocus, requestFocus, requestFocus, requestFocus, requestFocusInWindow, requestFocusInWindow, requestFocusInWindow, resize, resize, revalidate, setComponentOrientation, setDropTarget, setFocusable, setFocusTraversalKeysEnabled, setForeground, setIgnoreRepaint, setLocale, setMaximumSize, setMixingCutoutShape, setName, setPreferredSize, show, size, toString, transferFocus, transferFocusBackward, transferFocusUpCycle

Methods inherited from class java.lang.Object

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

Methods inherited from interface java.awt.MenuContainer

getFont, postEvent

Field Details

serialVersionUID

private static final long serialVersionUID

Use serialVersionUID for interoperability.

See Also:

• Constant Field Values

xScreen

protected static final int xScreen

Width of the display screen.

yScreen

protected static final int yScreen

Height of the display screen.

componentImage

protected ViewJComponentEditImage componentImage

Object where DICOM image, ... is converted and displayed as a Java image

controls

protected ViewControlsImage controls

Reference to the toolbars located in the controls object.

heightResFactor

protected float heightResFactor

Storage for correction parameters where datasets have non isotropic values.

imageBufferA

protected float[] imageBufferA

Buffer used to store image intensities the presently viewed slice of image A.

imageBufferB

protected float[] imageBufferB

Buffer used to store image intensities the presently viewed slice of image B.

infoDialogA

protected JDialogImageInfo infoDialogA

reference to the JDialogImageInfo for updating slice/resolutions.

infoDialogB

protected JDialogImageInfo infoDialogB

DOCUMENT ME!

logMagDisplay

protected boolean logMagDisplay

Flag indicating whether or not that the image should be displayed in Log scale. Used primarily for displaying the FFT of an image.

menuBar

protected JMenuBar menuBar

Reference to the frame's menu bar.

menuBarMaker

protected ViewMenuBar menuBarMaker

Constructs the image menu bar.

menuBuilder

protected ViewMenuBuilder menuBuilder

This object contains a number of useful functions for building a menu and querying the state of menu items.

nImage

protected int nImage

Number of slices in a 3D dataset.

nTImage

protected int nTImage

Number of time sequences in a 4D dataset.

pixBuffer

protected int[] pixBuffer

Integer buffer (4 bytes that stores the concatenated Alpha (1 byte), Red (1 byte), Green ( 1 byte ), Blue (1 byte ) data. The ARGB values are generated by using the imageA intensities as a index into a LUT.

pixBufferB

protected int[] pixBufferB

Integer buffer (4 bytes that stores the concatenated Alpha (1 byte), Red (1 byte), Green ( 1 byte ), Blue (1 byte ) data. The ARGB values are generated by using the imageB intensities as a index into a LUT.

resols

protected float[] resols

Storage of the image voxel resolutions. One resolution value per dimension.

scrollPane

protected JScrollPane scrollPane

The scrollPane where the image is displayed.

units

protected int[] units

Storage of the resolution units of measure. For example, mm, cm, inches ...

widthResFactor

protected float widthResFactor

Storage for correction parameters where datasets have non isotropic values.

windowLevel

protected JDialogWinLevel[] windowLevel

Reference to the two window and level dialogs where [0] is for imageA, [1] for imageB.

zoom

protected float zoom

Defaults magnification of image to 1.

colorChooser

private ViewJColorChooser colorChooser

Reference to the color chooser.

doOrients

private final boolean doOrients

DOCUMENT ME!

See Also:

• Constant Field Values

doOrigins

private final boolean doOrigins

When loading an image into B slot, should origins and orients be matched?

See Also:

• Constant Field Values

gridOptions

private JDialogGridOptions gridOptions

Only want one gridoptions dialog per jframeimage.

isShiftDown

private boolean isShiftDown

boolean indicating if shift button is down.

paintBrushLocked

private boolean paintBrushLocked

used in conjuction with the above variable, stating that the paint brush has been changed but will change back to previous.

quickPaintBrushIndex

private int quickPaintBrushIndex

DOCUMENT ME!

zoomDialog

private JDialogZoom zoomDialog

Reference to the magnification tool.

dpDialog

private JDialogDataProvenance dpDialog

Data provenance dialog

multipaintDialog

protected JDialogMultiPaint multipaintDialog

reference to the JDialogMultiPaint for shortcuts

VOIGroup

protected ButtonGroup VOIGroup

voiMenu

protected JMenu voiMenu

voiManager

protected VOIManagerInterface voiManager

prostateAAMClassification

private JDialogAAMClassification prostateAAMClassification

prostateML

private JDialogAAMplusSVM prostateML

Constructor Details

ViewJFrameImage

public ViewJFrameImage(ModelImage _imageA)

Makes a frame and puts an image into it. Image will be centered on screen.

Parameters:

_imageA - ModelImage - first image to display

ViewJFrameImage

public ViewJFrameImage(ModelImage _imageA,
 ModelLUT LUTa)

Makes a frame and puts an image into it. Image will be centered on screen.

Parameters:

_imageA - ModelImage - first image to display

LUTa - LUT of the imageA (if null grayscale LUT is constructed)

ViewJFrameImage

public ViewJFrameImage(ModelImage _imageA,
 ModelLUT LUTa,
 Dimension loc)

Makes a frame and puts an image component into it.

Parameters:

_imageA - First image to display

LUTa - LUT of the imageA (if null grayscale LUT is constructed)

loc - location where image should be initially placed

ViewJFrameImage

public ViewJFrameImage(ModelImage _imageA,
 ModelImage _imageB)

Makes a frame and puts an image component into it, does not display the frame through ViewJFrameImage's init() method.

Parameters:

_imageA - First image to display

_imageB - Second image to display

ViewJFrameImage

public ViewJFrameImage(ModelImage _imageA,
 ModelLUT LUTa,
 Dimension loc,
 boolean logMagDisplay)

Makes a frame and puts an image component into it.

Parameters:

_imageA - First image to display

LUTa - LUT of the imageA (if null grayscale LUT is constructed)

loc - location where image should be initially placed

logMagDisplay - Display log magnitude of image

ViewJFrameImage

public ViewJFrameImage(ModelSimpleImage simpleImage,
 String name)

Constructs a ModelSimpleImage VJF

Parameters:

simpleImage -

name -

Method Details

about

public void about()

Makes an aboutDialog box and displays information of the image plane presently being displayed.

actionPerformed

public void actionPerformed(ActionEvent event)

calls various methods depending on the action.

Specified by:

actionPerformed in interface ActionListener

Specified by:

actionPerformed in class ViewJFrameBase

Parameters:

event - event that triggered function

close

public void close()

Closes window and disposes of frame and component.

Overrides:

close in class ViewJFrameBase

close

public void close(boolean closeAll,
 boolean recordScriptAction)

Closes window and disposes of frame and component.

removeComponentListener

public void removeComponentListener()

removeMouseMotionListener

public void removeMouseMotionListener()

removeWindowListener

public void removeWindowListener()

removeMouseListener

public void removeMouseListener()

removeKeyListener

public void removeKeyListener()

collapseAlltoSinglePaint

public void collapseAlltoSinglePaint(boolean showProgressBar)

This method is provided for the user to convert a masked area back to a painted area. It only affects those areas that were masked with the intensity value that is currently active.

Parameters:

showProgressBar - DOCUMENT ME!

componentResized

public void componentResized(ComponentEvent event)

Resizes frame and all components.

Specified by:

componentResized in interface ComponentListener

Overrides:

componentResized in class ViewJFrameBase

Parameters:

event - event that triggered function

decSlice

public void decSlice()

Decreases the slice to be displayed by one and updates title frame.

decSliceEyeTracker

public void decSliceEyeTracker()

doLinkedScrolling

public void doLinkedScrolling(int offset)

enableImageB

public void enableImageB(boolean enable)

Quick and simple way for ViewJFrameBase to tell the ViewJFrameImage it created to set the menu (right now only for 2Dimensional) for image B.

Parameters:

enable - whether to enable the imageB related menu items

changeMenuEnables

public void changeMenuEnables()

Routine to enable some menu items and disable othter menu items when the dimensionality or type of the image is changed.

finalize

public void finalize()
              throws Throwable

Cleans memory.

Overrides:

finalize in class ViewJFrameBase

Throws:

Throwable - the Exception raised by this method

getActiveImage

public ModelImage getActiveImage()

Returns the reference to the currently active image.

Specified by:

getActiveImage in interface VOIManagerInterfaceListener

Returns:

the active image

getAlphaBlend

public float getAlphaBlend()

Returns the alphaBlend value for blending between imageA and imageB.

Overrides:

getAlphaBlend in class ViewJFrameBase

Returns:

the alphaBlend value for blending between imageA and imageB

getComponentImage

public ViewJComponentEditImage getComponentImage()

Returns the reference to the component image.

Returns:

component image

getControls

public ViewControlsImage getControls()

Get control widgets (toolbars, sliders) for the image frame.

Specified by:

getControls in class ViewJFrameBase

Returns:

the controls for this image frame

getFrameHeight

public int getFrameHeight()

Return the height that the frame should have.

Returns:

the frame's height

getFrameSize

public Dimension getFrameSize()

Return the preferred size for the frame.

Returns:

the size the frame should be

getFrameSize

public Dimension getFrameSize(Dimension size)

Return the preferred size for the frame.

Parameters:

size - if non-null, its dimensions are changed to the size the frame should be

Returns:

the size the frame should be

getFrameWidth

public int getFrameWidth()

Return the width that the frame should have.

Returns:

the frame's width

getImageA

public ModelImage getImageA()

Returns the reference to imageA.

Specified by:

getImageA in class ViewJFrameBase

Returns:

image

getImageB

public ModelImage getImageB()

Returns the reference to imageB.

Specified by:

getImageB in class ViewJFrameBase

Returns:

imageB

getViewMenuBar

public ViewMenuBar getViewMenuBar()

Returns:

menuBarMaker

getJMenuBar

public JMenuBar getJMenuBar()

Overrides:

getJMenuBar in class JFrame

Returns:

menuBar

getRegisteredFramedImages

public Vector<ModelImage> getRegisteredFramedImages(ModelImage activeImage)

Returns the Vector of Registered Framed Images that are of the same number of dimensions as the active image and same extents for dimesions 3, 4, and 5.

Returns:

Vector

getRegisteredFramedImages4D3D

public Vector<ModelImage> getRegisteredFramedImages4D3D(ModelImage activeImage)

If active image is 4D, this returns all 3d images that have same x,y,and z dimensionality as the 4d image

Returns:

Vector

getRegisteredFramedImagesSize

public int getRegisteredFramedImagesSize()

Returns the size of the RegisteredFramedImages Vector.

Returns:

size of the Vector

getRGBTA

public ModelRGB getRGBTA()

Gets the RGB LUT table for ARGB image A.

Overrides:

getRGBTA in class ViewJFrameBase

Returns:

RGBT the new RGB LUT to be applied to the image

getRGBTB

public ModelRGB getRGBTB()

Gets the RGB LUT table for ARGB image B.

Overrides:

getRGBTB in class ViewJFrameBase

Returns:

RGBT the new RGB LUT to be applied to the image

getScrollPane

public JScrollPane getScrollPane()

DOCUMENT ME!

Returns:

JScrollPane

getScrollPaneSize

public Dimension getScrollPaneSize(Dimension size)

Return the preferred size for the component image scroll pane.

Parameters:

size - if non-null, its dimensions are changed to the size the scroll pane should be

Returns:

the size the scroll pane should be

getViewableSlice

public int getViewableSlice()

Get the top-most slice.

Returns:

returns the slice which is currently displayed

getViewableTimeSlice

public int getViewableTimeSlice()

Gets the current Time slice which is being viewed.

Returns:

int the current time slice

handleMaskToPaint

public boolean handleMaskToPaint(boolean showProgressBar)

This method is provided for the user to convert a masked area back to a painted area. It only affects those areas that were masked with the intensity value that is currently active.

Parameters:

showProgressBar - DOCUMENT ME!

Returns:

DOCUMENT ME!

incSlice

public void incSlice()

Increases the slice to be displayed by one and updates title frame.

incSliceEyeTracker

public void incSliceEyeTracker()

initExtentsVariables

public void initExtentsVariables(ModelImage img)

Initializes the variables based on the image extents. (i.e. number of slices, number of time slices, the initial z-slice, etc.

Parameters:

img - the image to set the extent variables for

keyPressed

public void keyPressed(KeyEvent e)

********************************************************************* **************************** Key Events *** **************************.*********************************************************************

Specified by:

keyPressed in interface KeyListener

Parameters:

e - DOCUMENT ME!

keyReleased

public void keyReleased(KeyEvent e)

DOCUMENT ME!

Specified by:

keyReleased in interface KeyListener

Parameters:

e - DOCUMENT ME!

keyTyped

public void keyTyped(KeyEvent e)

DOCUMENT ME!

Specified by:

keyTyped in interface KeyListener

Parameters:

e - DOCUMENT ME!

mouseClicked

public void mouseClicked(MouseEvent event)

DOCUMENT ME!

Specified by:

mouseClicked in interface MouseListener

Parameters:

event - DOCUMENT ME!

mouseDragged

public void mouseDragged(MouseEvent e)

DOCUMENT ME!

Specified by:

mouseDragged in interface MouseMotionListener

Parameters:

e - DOCUMENT ME!

mouseEntered

public void mouseEntered(MouseEvent event)

DOCUMENT ME!

Specified by:

mouseEntered in interface MouseListener

Parameters:

event - DOCUMENT ME!

mouseExited

public void mouseExited(MouseEvent event)

DOCUMENT ME!

Specified by:

mouseExited in interface MouseListener

Parameters:

event - DOCUMENT ME!

mouseMoved

public void mouseMoved(MouseEvent e)

DOCUMENT ME!

Specified by:

mouseMoved in interface MouseMotionListener

Parameters:

e - DOCUMENT ME!

mousePressed

public void mousePressed(MouseEvent event)

DOCUMENT ME!

Specified by:

mousePressed in interface MouseListener

Parameters:

event - DOCUMENT ME!

mouseReleased

public void mouseReleased(MouseEvent event)

DOCUMENT ME!

Specified by:

mouseReleased in interface MouseListener

Parameters:

event - DOCUMENT ME!

openFrame

public ViewJFrameImage openFrame(ModelImage image)

ViewOpenFrameInterface function to create a new frame from a result image (jdialog produced)

Specified by:

openFrame in interface ViewOpenFrameInterface

printImage

public void printImage()

Method to send an image to the printer.

removeControls

public void removeControls()

Removes the menu and controls of the main frame so that a new frame can load the main frame with the proper controls. Since the controls point to this particular image, when we remove the controls, turn off the highlight box.

Specified by:

removeControls in class ViewJFrameBase

See Also:

• ViewJComponentEditImage.useHighlight(boolean)
• Component.repaint()

saveImageInfo

public void saveImageInfo()

Saves the image info; need to do before saving image.

setActiveImage

public void setActiveImage(int active)

Sets the active image for drawing VOIs. VOIs are only drawn in the active image. In addition, algorithms are executed on the active window.

Specified by:

setActiveImage in interface VOIManagerInterfaceListener

Specified by:

setActiveImage in class ViewJFrameBase

Parameters:

active - IMAGE_A or IMAGE_B

setAlphaBlend

public void setAlphaBlend(int value)

Sets the alpha blending of parameter for two image displaying.

Specified by:

setAlphaBlend in class ViewJFrameBase

Parameters:

value - amount [0,100] that is the percentage of Image A to be displayed

setAndLoad

public boolean setAndLoad(ModelImage image2load)

DOCUMENT ME!

Parameters:

image2load - DOCUMENT ME!

Returns:

DOCUMENT ME!

setAndLoad

public boolean setAndLoad(ModelImage image2load,
 boolean doOrigins,
 boolean doOrients,
 double defaultValue,
 double defaultRed,
 double defaultGreen,
 double defaultBlue)

DOCUMENT ME!

Parameters:

image2load - DOCUMENT ME!

doOrigins - DOCUMENT ME!

doOrients - DOCUMENT ME!

Returns:

DOCUMENT ME!

setControls

public void setControls()

Sets the menu and controls (i.e. toolbars) of the main frame! This puts the menus and controls needed to controls the operations of this frame. Different image frames have different menu and controls. Notify this componentImage that it needs to display highlight box, notifying user that this componentImage is the image being controlled

Specified by:

setControls in class ViewJFrameBase

See Also:

• ViewJComponentEditImage.useHighlight(boolean)
• Component.repaint()

setEnabled

public void setEnabled(boolean flag)

Controls whether or not the images/VOIs of the frame can be modified.

Specified by:

setEnabled in class ViewJFrameBase

Parameters:

flag - if true the image/VOIs can be modified; if false image/VOIs can NOT be modified

setImageB

public void setImageB(ModelImage _imageB)

Sets the reference to imageB.

Specified by:

setImageB in class ViewJFrameBase

Parameters:

_imageB - image to set the frame to

setLUTa

public void setLUTa(ModelLUT LUT)

Sets the LUT for image A.

Overrides:

setLUTa in class ViewJFrameBase

Parameters:

LUT - the LUT

setLUTb

public void setLUTb(ModelLUT LUT)

Sets the LUT for image B.

Overrides:

setLUTb in class ViewJFrameBase

Parameters:

LUT - the LUT

setOutputWindowBox

public void setOutputWindowBox(boolean isShown)

Updates the checkbox to show whether or not the output window is currently displayed.

Parameters:

isShown - boolean is the output window shown

setPaintBitmapSwitch

public void setPaintBitmapSwitch(boolean paintBitmapSwitch)

When switching the active image, copy the paintBitmap of the previous active image into the paintBitmap of the new active image.

Specified by:

setPaintBitmapSwitch in class ViewJFrameBase

Parameters:

paintBitmapSwitch - if true do not getMask on a setActiveImage command

setRGBTA

public void setRGBTA(ModelRGB RGBT)

Sets the RGB LUT table for ARGB image A.

Specified by:

setRGBTA in class ViewJFrameBase

Parameters:

RGBT - the new RGB LUT to be applied to the image

setRGBTB

public void setRGBTB(ModelRGB RGBT)

Sets the RGB LUT table for ARGB image B.

Specified by:

setRGBTB in class ViewJFrameBase

Parameters:

RGBT - the new RGB LUT to be applied to the image

setShiftDown

public void setShiftDown(boolean isShiftDown)

DOCUMENT ME.*

Parameters:

isShiftDown - DOCUMENT ME!

setSlice

public void setSlice(int slice)

Sets the slice to be displayed and updates title frame.

Specified by:

setSlice in interface ViewImageUpdateInterface

Parameters:

slice - indicates image slice to be displayed

setSlice

public void setSlice(int slice,
 boolean updateLinkedImages)

DOCUMENT ME!

Parameters:

slice - DOCUMENT ME!

updateLinkedImages - DOCUMENT ME!

setTimeSlice

public void setTimeSlice(int slice)

Sets the slice to be displayed and updates title frame.

Specified by:

setTimeSlice in interface ViewImageUpdateInterface

Parameters:

slice - indicates image time-slice (4th dimension) to be displayed

setTimeSlice

public void setTimeSlice(int slice,
 boolean checkScroll)

Sets the slice to be displayed and updates title frame.

Parameters:

slice - indicates image time-slice (4th dimension) to be displayed

whether - linked images should change their linked image sets

setTitle

public void setTitle()

Sets the title of the frame with the image name and the slice location.

Specified by:

setTitle in class ViewJFrameBase

setZoomB

public boolean setZoomB()

Sets the magnification of Image B. Allocates the image buffers so that it can be displayed properly.

Returns:

true if setting the zoom on imageB was successful

setZoomDialogNull

public void setZoomDialogNull()

Sets the magnification dialog to null.

showEditImageInfo

public void showEditImageInfo()

DOCUMENT ME!

stateChanged

public void stateChanged(ChangeEvent event)

DOCUMENT ME!

Specified by:

stateChanged in interface ChangeListener

Overrides:

stateChanged in class ViewJFrameBase

Parameters:

event - DOCUMENT ME!

triPlanarClosing

public void triPlanarClosing()

DOCUMENT ME!

updateFrame

public void updateFrame(float sX,
 float sY)

Updates the this frame's size the components sizes. If the magnified image fits into the frame that will fit into the screen then frame and image are sized appropriately. If the frame, to fit the image, exceeds the screen size the frame remains the same size and the image magnified and placed in the scroll pane.

Parameters:

sX - zoom in the x dimension

sY - zoom in the y dimension

updateFrame

public void updateFrame(float sX,
 float sY,
 int x,
 int y)

public void updateFrame(float xZoom, float yZoom, int x, int y) This method is called when the user is zooming in or out.

Parameters:

sX - float zoom in the x dimension

sY - float zoom in the y dimension

x - int X-pixel the user wants to zoom around

y - int Y-pixel the user wants to zoom around

updateImageExtents

public boolean updateImageExtents()

This methods calls the componentImage's REPAINT method to redraw the screen. The extents on this image have changed, so the extents need to be read in again and menus, panes and slide bars adjusted accordingly.

Specified by:

updateImageExtents in interface ViewImageUpdateInterface

Specified by:

updateImageExtents in class ViewJFrameBase

Returns:

whether the image extents update was successful

See Also:

• ViewImageUpdateInterface

updateImages

public boolean updateImages()

This methods calls the componentImage's update method to redraw the screen - fastest of the three update methods.

Specified by:

updateImages in interface ViewImageUpdateInterface

Returns:

boolean confirming successful update

updateImages

public boolean updateImages(boolean forceShow)

This methods calls the componentImage's update method to redraw the screen. Without LUT changes.

Specified by:

updateImages in interface ViewImageUpdateInterface

Parameters:

forceShow - forces show to re import image and calc. java image

Returns:

boolean confirming successful update

updateImages

public boolean updateImages(boolean forceShow,
 int interpMode)

This methods calls the componentImage's update method to redraw the screen. Without LUT changes.

Parameters:

forceShow - forces show to re import image and calc. java image

interpMode -

Returns:

boolean confirming successful update

updateImages

public boolean updateImages(ModelLUT LUTa,
 ModelLUT LUTb,
 boolean forceShow,
 int interpMode)

This methods calls the componentImage's update method to redraw the screen.

Specified by:

updateImages in interface ViewImageUpdateInterface

Parameters:

LUTa - LUT used to update imageA

LUTb - LUT used to update imageB

forceShow - forces show to re import image and calc. java image

interpMode - image interpolation method (Nearest or Smooth)

Returns:

boolean confirming successful update

updateMenubar

public void updateMenubar()

This method updates the menubar; ie: after an image has been opened.

updateWinLevel

public void updateWinLevel(int min,
 int max)

Update the window level sliders from the CT preset dialog.

Parameters:

min - min value.

max - max value.

windowClosing

public void windowClosing(WindowEvent event)

Closes window and disposes of frame and component.

Specified by:

windowClosing in interface WindowListener

Overrides:

windowClosing in class ViewJFrameBase

Parameters:

event - Event that triggered function

createBuffers

protected int[] createBuffers()
                       throws OutOfMemoryError

Create the buffers for imageA and imageB.

Returns:

the extents of the buffers

Throws:

OutOfMemoryError - if enough memory cannot be allocated for this method

getActiveImageInfoDialog

protected JDialogImageInfo getActiveImageInfoDialog()

Returns a reference to the image info dialog for the active image. Image A and image B have references to their individual dialogs.

Returns:

a reference to the image info dialog for the active image

getImageInfoDialogB

protected JDialogImageInfo getImageInfoDialogB()

Returns the image info dialog for image B.

Returns:

the image info dialog for image B

getScrollPaneHeight

protected int getScrollPaneHeight()

Get the height of the scroll pane holding the component image.

Returns:

the height of the component image scroll pane

getScrollPaneSize

protected Dimension getScrollPaneSize()

Get the size of the scroll pane holding the component image.

Returns:

the size of the component image scroll pane

getScrollPaneWidth

protected int getScrollPaneWidth()

Get the width of the scroll pane holding the component image.

Returns:

the width of the component image scroll pane

initLUT

protected void initLUT()
                throws OutOfMemoryError

Creates and initializes the LUT for the first image (imageA) if it hasn't been already.

Throws:

OutOfMemoryError - if enough memory cannot be allocated for this method

initResolutions

public void initResolutions()

Initializes the resolutions and units from the image.

initZoom

public void initZoom()

Initializes the zoom variables for the first image (imageA).

makeTitle

protected String makeTitle()

Constructs the title of the frame with the image name and the slice location.

Returns:

the image frame title

testParameter

protected boolean testParameter(String str,
 double minValue,
 double maxValue)

Tests that the entered parameter is in range.

Parameters:

str - the value entered by the user

minValue - the minimum value this variable may be set to

maxValue - the maximum value this variable may be set to

Returns:

boolean result of test

updateHistoLUTFrame

@Deprecated
protected void updateHistoLUTFrame(int imageAorB)

Deprecated.

Displays histoLUT frame for a gray scale image.

Parameters:

imageAorB - whether to show the IMAGE_A, IMAGE_B or IMAGE_A_B lut frame

updateHistoLUTFrame

@Deprecated
protected void updateHistoLUTFrame(int imageAorB,
 ViewJComponentEditImage compImg)

Deprecated.

Displays histoLUT frame for a gray scale image.

Parameters:

imageAorB - whether to show the IMAGE_A, IMAGE_B or IMAGE_A_B lut frame

compImg - the component image with the image histogram frames to update

updateHistoRGBFrame

@Deprecated
protected void updateHistoRGBFrame(int imageAorB)

Deprecated.

Displays histoRGB frame for an RGB image.

Parameters:

imageAorB - indicates whether to show IMAGE_A, IMAGE_B or IMAGE_A_B (both).

updateHistoRGBFrame

@Deprecated
protected void updateHistoRGBFrame(int imageAorB,
 ViewJComponentEditImage compImg)

Deprecated.

Displays histoRGB frame for an RGB image.

Parameters:

imageAorB - indicates whether to show IMAGE_A, IMAGE_B or IMAGE_A_B (both).

compImg - the component image with the image histogram frames to update

adjustScrollbars

private void adjustScrollbars(int x,
 int y)

DOCUMENT ME!

Parameters:

x - int

y - int

computeIdealWindowSize

protected void computeIdealWindowSize()

private void computeIdealWindowSize() This method will enlarge or shrink the window size in response to the componentImage being zoomed. It will only resize the window to IMAGE_SCREEN_RATIO of the screen size, in this case 3/5. If the image is zoomed past that size, scrollbars are added. If the user has dragged the window to a size larger than 3/5 of screen size, I assume he wants it that way and the window will not be resized in that case upon zoom-in.

init

private void init(ModelLUT LUTa,
 Dimension loc,
 boolean logMagDisplay)
           throws OutOfMemoryError

Initializes the frame and variables.

Parameters:

LUTa - LUT of the imageA (if null grayscale LUT is constructed)

loc - location where image should be initially placed

logMagDisplay - a boolean indicating if the log magnitude of image should be displayed.

Throws:

OutOfMemoryError - if enough memory cannot be allocated for the GUI

initComponentImage

protected void initComponentImage(int[] extents)
                           throws OutOfMemoryError

Creates and initializes the component image for the given image.

Parameters:

extents - the image dimensionality.

Throws:

OutOfMemoryError - if enough memory cannot be allocated for this method

isMultipleImages

private boolean isMultipleImages()

Helper method to establish if there are other images so that a dialog can be created. Used by registration methods, load frame, etc.

Returns:

true if there are images to operate on.

isMultipleSameSizeImages

private boolean isMultipleSameSizeImages(boolean isForCalculator)

Helper method to establish if there are images of the same dimensionality so that a dialog can be created. Used by image calculator, concat, etc.

Parameters:

isForCalculator - whether this call is being done before using the image calculator

Returns:

true if there are images to operate on.

propagatePaintToAllSlices

private void propagatePaintToAllSlices()

DOCUMENT ME!

propagatePaintToNextSlice

private void propagatePaintToNextSlice()

DOCUMENT ME!

propagatePaintToPreviousSlice

private void propagatePaintToPreviousSlice()

DOCUMENT ME!

checkForActiveVOIs

private boolean checkForActiveVOIs()

convertVOITBI

private void convertVOITBI()

surfaceReconstructionTBI

private void surfaceReconstructionTBI()

saveMergedVOIs

private void saveMergedVOIs()

This method merges the 3 axial, sagittal, coronal VOIs and save them into one cloudy points file. This function is used by the prostate surface reconstruction analysis.

reconstructSurfaceFromVOIs

private void reconstructSurfaceFromVOIs()

Reconstruct the prostate surface from the coarse VOIs cloudy points.

saveProstateFeatures

private void saveProstateFeatures()

saveProstateFeatures2D

private void saveProstateFeatures2D()

saveProstateBoundaryFeature

private void saveProstateBoundaryFeature()

testProstateFeatures2D

private void testProstateFeatures2D()

testProstateFeatures

public void testProstateFeatures()

testProstateFeaturesClassification

private void testProstateFeaturesClassification()

testProstateFeaturesTrain

private void testProstateFeaturesTrain()

testProstateBoundaryFeatureTrain

private void testProstateBoundaryFeatureTrain()

generateAtlasImage

private void generateAtlasImage()

Read the 3D atlas images directory, convert each 3D image to 2D slices based atlas. And save the final 2D slice and corresponding VOIs to specified atlas directory.

generateEndingSlices

private void generateEndingSlices()

aamGroups

private void aamGroups()

aamGroupRename

private void aamGroupRename()

aamClassification

private void aamClassification()

deepCNNTrain

private void deepCNNTrain()

deepCNNTest

private void deepCNNTest()

deepCNNConvert

private void deepCNNConvert()

deepKneesAtlas

private void deepKneesAtlas()

deepKneesMap

private void deepKneesMap()

deepCNNMap

private void deepCNNMap()

hedCNNMap

private void hedCNNMap()

aamMLClassification

private void aamMLClassification()

extractCEFeature

private void extractCEFeature()

loadProstateMask

private void loadProstateMask()

prostateSemiAutoBSplineFuzzyC

private void prostateSemiAutoBSplineFuzzyC()

prostateSemiAutoBSpline

private void prostateSemiAutoBSpline()

initVOI

protected void initVOI()

Initialize the 3D VOI interface.

getCenterPt

public WildMagic.LibFoundation.Mathematics.Vector3f getCenterPt()

Specified by:

getCenterPt in interface VOIManagerInterfaceListener

getFrame

public JFrame getFrame()

Specified by:

getFrame in interface VOIManagerInterfaceListener

getVOIManager

public VOIManagerInterface getVOIManager()

Specified by:

getVOIManager in interface VOIManagerInterfaceListener

PointerActive

public void PointerActive(boolean bActive)

Specified by:

PointerActive in interface VOIManagerInterfaceListener

PropDown

public WildMagic.LibFoundation.Mathematics.Vector3f PropDown(int iActive)

Specified by:

PropDown in interface VOIManagerInterfaceListener

PropUp

public WildMagic.LibFoundation.Mathematics.Vector3f PropUp(int iActive)

Specified by:

PropUp in interface VOIManagerInterfaceListener

create3DVOI

public void create3DVOI(boolean bIntersection)

Specified by:

create3DVOI in interface VOIManagerInterfaceListener

setActiveImage

public void setActiveImage(ModelImage kImage)

Specified by:

setActiveImage in interface VOIManagerInterfaceListener

setCenter

public void setCenter(WildMagic.LibFoundation.Mathematics.Vector3f kCenter)

Specified by:

setCenter in interface VOIManagerInterfaceListener

setCursor

public void setCursor(Cursor kCursor)

Specified by:

setCursor in interface VOIManagerInterfaceListener

Overrides:

setCursor in class Window

setModified

public void setModified()

Specified by:

setModified in interface VOIManagerInterfaceListener

updateData

public void updateData()

Specified by:

updateData in interface VOIManagerInterfaceListener

getActiveLUT

public ModelLUT getActiveLUT()

Specified by:

getActiveLUT in interface VOIManagerInterfaceListener

getActiveRGB

public ModelRGB getActiveRGB()

Specified by:

getActiveRGB in interface VOIManagerInterfaceListener

setPaintMask

public void setPaintMask(BitSet mask)

Specified by:

setPaintMask in interface VOIManagerInterfaceListener

paintToShortMask

public void paintToShortMask()

Specified by:

paintToShortMask in interface VOIManagerInterfaceListener

paintToUbyteMask

public void paintToUbyteMask()

Specified by:

paintToUbyteMask in interface VOIManagerInterfaceListener

maskToPaint

public void maskToPaint()

Specified by:

maskToPaint in interface VOIManagerInterfaceListener

getFrameLandMarkPoints

public int[] getFrameLandMarkPoints()

Get the frame four corner landmark points.

Returns:

landmark points result[0] = startX; result[1] = startY; result[2] = endX; result[3] = endY;

addSphereVOIs

public void addSphereVOIs(VOI annotations)

Specified by:

addSphereVOIs in interface VOIManagerInterfaceListener