Package gov.nih.mipav.view

Class ViewJFrameTriImage

  • All Implemented Interfaces:
    VOIManagerInterfaceListener, ViewImageUpdateInterface, java.awt.event.ActionListener, java.awt.event.ComponentListener, java.awt.event.ItemListener, java.awt.event.KeyListener, java.awt.event.MouseListener, java.awt.event.WindowListener, java.awt.image.ImageObserver, java.awt.MenuContainer, java.io.Serializable, java.util.EventListener, javax.accessibility.Accessible, javax.swing.event.ChangeListener, javax.swing.RootPaneContainer, javax.swing.WindowConstants
    Direct Known Subclasses:
    ViewJFrameMultimodalitySingleViewer, ViewJFrameMultimodalityViewer
    public class ViewJFrameTriImage
extends ViewJFrameBase
implements java.awt.event.ItemListener, javax.swing.event.ChangeListener, java.awt.event.KeyListener, java.awt.event.MouseListener, VOIManagerInterfaceListener
    This program works with 3D and 4D images. Makes a frame and puts 3 images into it - an XY image in the upper left quadrant, a ZY image in the upper right quadrant, and a XZ image in the lower left quadrant. The XY image always has increasing X going from left to right and increasing Y going from top to bottom. If the image orientation is FileInfoBase.UNKNOWN_ORIENT, the ZY image has Z increasing from left to right and Y increasing from top to bottom. If the image orientation is known, the ZY image has Y increasing from left to right and Z increasing from bottom to top. The XZ image always has X increasing from left to right. If the orientation is unknown, Z increases from top to bottom. If the orientation is known, Z increases from bottom to top. If the image orientation is known XY has an axial slice, ZY has a sagittal slice, and XZ has a coronal slice. The lower right quadrant displays the X, Y, and Z coordinates of the point selected.

    There are 2 menus - a file menu and an options menu. The file menu only has a close frame command. The Options menu has a Show Axes command,a Show Crosshairs command, a show Talairach grid, a show Talairach position command, and a Link to another image command.

    There are 2 rows of toolbar buttons. The first row has 15 toolbar buttons:
    1.) Traverse image with pressed mouse button. As you traverse the XY image, the XY image is unchanged. The X slice shown in the ZY image changes and the Y coordinate in the ZY image changes. The Z coordinate in the ZY image remains unchanged. The Y slice shown in the XZ image changes and the X coordinate in the XZ image changes. The Z coordinate shown in the XZ image remains unchanged. Analagous operation for traversing the ZY and XZ slices.
    2.) Magnify image 2.0X. Note that magnification is always a power of 2.
    3.) Magnify image 0.5X.
    4.) Set image magnification to 1.0X.
    5.) Draw a line VOI which can be used for measurement. 6.) Identify center of volume to determine translations. Centers are moved with mouse dragging operations. Plus sign markers appear to show the new center for each image. Otherwise, operation is similar to the traverse command. The centers disappear when traverse mode is entered.
    7.) Alignment tool to determine rotations. Protractors with 2 line segments intersecting in a common point appear in all 3 images. By putting a cursor at the tip of a protractor line segment and pressing the mouse button, it is possible to shrink, grow, or rotate the line segment. The thicker line segment is the reference line segment which will always click into a vertical or horizontal orientation(whichever is closer) when the mouse button is released. The thinner line segment can be left in any orientation. The angle is measured in degrees by going clockwise from the thick reference segment to the thinner segment. When the mouse button is pressed with the cursor on the protractor, the angle in degrees will appear. If the cursor is placed over a part of the protractor other than a nonintersecting line segment end and the mouse button is pressed, then the protractor can be moved unchanged in size and angle.
    8.) Apply rotations and translations. An apply transformation matrix dialog appears. Under Destination radio buttons for new image and replace image are present. Under interpolation a combo box with trilinear, bspline 3rd order, and bspline 4rth order are present. Apply and cancel buttons are present on the bottom of the dialog. For 4D images apply the same transformation to all time slices.
    9.) Add a non center point to all images.
    10.) New VOI.
    11.) Delete a non center point from all images.
    12.) Bounding cube to set boundaries for cropping.
    13.) Crop the image using the bounding cube boundaries. For 4D images apply the same cropping to all time slices.
    14.) (**REMOVED**)Bring up a dialog for placing markers to create a new image in the AC-PC aligned view.
    15.) (**REMOVED**)Bring up a dialog for placing markers to create a new Talairach space image from an image in the AC-PC aligned view.

    The second toolbar row is a paint toolbar with 14 buttons:
    1.) Draw using a brush.
    2.) Pick up a color from an image.
    3.) Fills an area with the desired color - the Paint Grow dialog box appears. The box has an upper bound slider, a lower bound slider, and text fields for entering maximum size and maximum distance. Apply and cancel buttons are present.
    4.) Erases a portion of the image.
    5.) Erases all paint.
    6.) Draw using small size.
    7.) Draw using medium size.
    8.) Draw using large size.
    9.) Change intensity level of the paint - a desired paint intensity dialog box appears. The box tells the minimum and maximum allowed intensity levels. The user inputs inputs the desired intensity level. Apply and cancel buttons are present. Pressing the apply button causes the desired intensity level to be placed in intensityDropper. The initial desired intensity level is 1.
    10.) Change paint color - a pick paint color dialog box appears. If controls is not null, the original value of color is given by color = controls.getTools().paintColor; Otherwise, the original value is taken as new Color(255,0,0).
    11.) Change opacity of paint - a paint opacity dialog box appears. If controls is not null, the original value of opacity is given by OPACITY = controls.getTools().opacity; Otherwise, the original value is taken as 0.25. The dialog box has a slider whose value can be varied from 0 to 1.
    12.) Commit - Changes image where painted. The painted pixels are given values equal to intensityDropper and the paint is erased.
    13.) Undo last paint region created by a mouse release.
    14.) Calculate volume of paint.

    If imageA and imageB are both loaded, an Active Image Panel with 3 radio buttons, image A, imageB, and both appears. Commit paint changes and apply rotations and translations may be selected for imageA, imageB, or both.

    With 4D images a slider for the fourth time dimension appears below the second toolbar.

    See Also:
    Serialized Form

    • Nested Class Summary

      Nested Classes 
      Modifier and Type Class Description
      (package private) class  ViewJFrameTriImage.OkColorListener
      Listener to pass to JColorChooser when user wants to change the color of the paint.
      (package private) class  ViewJFrameTriImage.PaintBoxRenderer
      DOCUMENT ME!

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

        javax.swing.JFrame.AccessibleJFrame

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

        java.awt.Frame.AccessibleAWTFrame

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

        java.awt.Window.AccessibleAWTWindow, java.awt.Window.Type

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

        java.awt.Container.AccessibleAWTContainer

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

        java.awt.Component.AccessibleAWTComponent, java.awt.Component.BaselineResizeBehavior, java.awt.Component.BltBufferStrategy, java.awt.Component.FlipBufferStrategy

    • Method Summary

      All Methods Instance Methods Concrete Methods Deprecated Methods 
      Modifier and Type Method Description
      void absoluteGoTo()
      Method that goes to the absolute voxel coordinate that is entered
      void actionPerformed​(java.awt.event.ActionEvent event)
      Calls various methods depending on the action.
      void addCoordinateChangeListener​(CoordinateChangeListener listener)
      Add someone who wants to be notified about crosshair coordinate changes.
      void addSphereVOIs​(VOI annotations)  
      void addTabbedPane()
      Called when the volumePositionFrame closes, the volumePositionPanel is again displayed in the window:.
      private void adjustScrollbars​(int frame, int x, int y)
      This method adjust the scrollbars to area where user clicked when doing individual frame zooming in and out.
      private void adjustScrollbars​(int x, int y, javax.swing.JScrollPane scrollPane)
      DOCUMENT ME!
      protected void buildActiveImagePanel()
      Builds the active image panel for choosing which image (A, B, or BOTH) to perform operations on.
      protected void buildDisabledTextButton​(java.lang.String text, java.lang.String toolTip, java.lang.String action, javax.swing.JToolBar toolbar)
      Helper method to build a text button for the toolbar.
      protected void buildIconButton​(java.lang.String icon, java.lang.String toolTip, java.lang.String action, java.lang.String iconroll, javax.swing.JToolBar toolbar)
      Helper method to build an icon button for the toolbar.
      protected void buildImageAlignToolBar()  
      private void buildLabels()
      Convenience method created to simplify configureFrame().
      protected void buildLUTs()
      Convenience method created to simplify configureFrame().
      protected javax.swing.JToolBar buildMagToolBar​(int boxLayout)
      Builds the image toolbar for zooming
      protected javax.swing.JMenuBar buildMenu()
      Builds menus for the tri-planar view.
      protected javax.swing.JButton buildNamedTextButton​(java.lang.String text, java.lang.String toolTip, java.lang.String action, javax.swing.JToolBar toolbar)
      Helper method to build a text button for the toolbar.
      protected javax.swing.JToolBar buildPaintToolBar​(int boxLayout)
      Builds the paint toolbar
      protected void buildProgressBar​(java.lang.String imageName, java.lang.String message, int start, int end)
      Constructs progress bar.
      protected java.util.Hashtable<java.lang.Integer,​javax.swing.JLabel> buildTImageSliderLabels​(int min, int max)
      Builds the slider labels for the time slider.
      protected void buildToggleButton​(java.lang.String icon, java.lang.String toolTip, java.lang.String action, java.lang.String iconroll, javax.swing.ButtonGroup group, javax.swing.JToolBar toolbar)
      Helper method to build a toggle button for the toolbar.
      protected void buildToggleButton​(java.lang.String icon, java.lang.String toolTip, java.lang.String action, java.lang.String iconroll, javax.swing.ButtonGroup group, javax.swing.JToolBar toolbar, boolean selected)
      Helper method to build a toggle button for the toolbar.
      protected javax.swing.JMenu buildToolbarMenu​(boolean showPaintToolbar)  
      protected void buildToolbars()
      Builds the toolbars for the tri-planar view.
      protected ViewJComponentTriImage buildTriImage​(ModelImage imageA, ModelLUT lutA, ModelRGB RGBTa, ModelImage imageB, ModelLUT lutB, ModelRGB RGBTb, int orientation)
      This method creates an image from the two ModelImage objects and ModelLUT objects passed as parameters.
      protected void buildVolumePositionPanel()
      Builds the volume position panel, which is the panel that sits in the plug-in area of the 2x2 tri-planar layout.
      protected void cleanVolumePositionPanel()
      Clears the volumePositionPanel, so it can be recreated when the volumePositionFrame is closed:.
      void closeImageB()
      Closes the image B and performs cleanup.
      protected void configureFrame()
      Constructs main frame structures for 3 images (image A only) or 9 images (image A and image B).
      void create3DVOI​(boolean bIntersection)  
      void disposeLocal()
      Should be called when window is closing to perform cleanup.
      protected void doOldLayout()
      This is an alternative layout arrangement.
      void enableBoth​(boolean bEnable)  
      protected void finalize()
      DOCUMENT ME!
      protected void fireCoordinateChange​(int i, int j, int k)
      Tell coordinate change listeners about a coordinate change (after changing the coordinate to image volume space from the tri-planar space).
      ModelImage getActiveImage()  
      ModelLUT getActiveLUT()  
      ModelRGB getActiveRGB()  
      int getAxialComponentSlice()
      Gets the axial position of the slice.
      CubeBounds getBoundedVolume()
      Returns the crop bounding volume as a CubeBounds object.
      int[] getCenter()
      Sets the x coordinate of the point to be the center of the transformed image.
      WildMagic.LibFoundation.Mathematics.Vector3f getCenterPt()  
      ViewControlsImage getControls()
      Gets reference to control widgets for frame.
      int getCoronalComponentSlice()
      Gets the y position of the slice.
      int getCurrentOrientation()  
      Point3D getCurrentPositionLabels()
      Get the last point that the position labels got set to.
      javax.swing.JFrame getFrame()  
      ModelImage getImageA()
      Accessor that returns the reference to imageA.
      ModelImage getImageB()
      Accessor that returns the reference to imageB.
      ViewJFrameTriImage getLinkedTriFrame()
      Gets the linked ViewJFrameTriImage.
      protected float getOptimalZoom​(int desiredWidth, int desiredHeight)
      Calculates the optimal zoom value for an image based on the two parameters desiredWidth and desiredHeight.
      ViewJFrameImage getParentFrame()
      Returns a reference to the ViewJFrameImage object that is the parent of this frame.
      int getSagittalComponentSlice()
      Gets the x position of the slice.
      int getSelectedImage()
      Returns an integer which represents the image that is selected.
      ViewJComponentTriImage getTriImage​(int index)
      Returns a reference to one of the component tri-image components.
      javax.swing.JLabel gettTalVoxLabel()  
      VOIManagerInterface getVOIManager()  
      java.awt.Color getXSliceHairColor()
      Gets the color of the X slice crosshair.
      java.awt.Color getYSliceHairColor()
      Gets the color of the Y slice crosshair.
      java.awt.Color getZSliceHairColor()
      Gets the color of the Z slice crosshair.
      protected void handleLeastSquares()
      Method handles transformations for least squares algorithm in the tri-planar frame.
      protected void handlePluginPanelSelection()
      This method will load a plug-in into the plug-in area of the tri-planar frame.
      protected void handleTPSpline()
      DOCUMENT ME!
      protected void init()
      Initialize the the image orientations and call the frame layout method 'configureFrame()'.
      protected void initProgressBar()
      Initializes the progress bar.
      protected void initVOI()
      Initialize the 3D VOI interface.
      boolean isFocusable()
      Always returns true.
      protected boolean isMultipleSameSizeTriImages()
      Helper method to establish if there are images of the same dimensionality so that a dialog can be created.
      void itemStateChanged​(java.awt.event.ItemEvent event)
      Does setBorderPainted for the appropriate button.
      void keyPressed​(java.awt.event.KeyEvent e)
      keyPressed event method for KeyListener.
      void keyReleased​(java.awt.event.KeyEvent e)
      keyReleased event method for KeyListener.
      void keyTyped​(java.awt.event.KeyEvent e)
      DOCUMENT ME!
      protected javax.swing.JButton makeSeparator()
      Makes a separator for the use in the toolbars.
      void maskToPaint()  
      void mouseClicked​(java.awt.event.MouseEvent event)
      DOCUMENT ME!
      void mouseEntered​(java.awt.event.MouseEvent event)
      DOCUMENT ME!
      void mouseExited​(java.awt.event.MouseEvent event)
      DOCUMENT ME!
      void mousePressed​(java.awt.event.MouseEvent event)
      DOCUMENT ME!
      void mouseReleased​(java.awt.event.MouseEvent event)
      DOCUMENT ME!
      void paintToShortMask()  
      void paintToUbyteMask()  
      void PointerActive​(boolean bActive)  
      WildMagic.LibFoundation.Mathematics.Vector3f PropDown​(int iActive)  
      WildMagic.LibFoundation.Mathematics.Vector3f PropUp​(int iActive)  
      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 removeCoordinateChangeListener​(CoordinateChangeListener listener)
      Remove a coordinate change listener from this frame's list.
      private void scannerLPSGoTo()
      Method that goes to the lps coordinate that is entered
      private void scannerRASGoTo()
      Method that goes to the ras coordinate that is entered
      void setActiveImage​(int active)
      Set the active image for drawing VOIs.
      void setActiveImage​(ModelImage kImage)  
      void setAlphaBlend​(int value)
      Sets the alpha blending of parameter for two image displaying.
      void setCenter​(int i, int j, int k)
      sets the crosshair positions and slices for each of the triImages.
      void setCenter​(int i, int j, int k, boolean checkLinkedScroll)
      sets the crosshair positions and slices for each of the triImages.
      void setCenter​(WildMagic.LibFoundation.Mathematics.Vector3f kCenter)  
      void setControls()
      Sets the menu and controls (i.e. toolbars) of the main frame!
      void setCrop​(WildMagic.LibFoundation.Mathematics.Vector3f lower, WildMagic.LibFoundation.Mathematics.Vector3f upper)
      Sets the new crop volume in the ViewJComponentTriImage frames and sets the volumeBounds.
      void setCurrentOrientation​(int currentOrientation)  
      void setCursor​(java.awt.Cursor kCursor)  
      void setDefault()
      Sets modes in all images to ViewJComponentBase.DEFAULT.
      void setEnabled​(boolean flag)
      Controls whether or not the images/VOIs of the frame can be modified.
      void setImageA​(ModelImage image)
      Changes imageA to a new model image reference.
      protected void setImageActiveInTriComponents​(int activeImage)
      DOCUMENT ME!
      void setImageB​(ModelImage _imageB)
      Accessor that sets the reference to imageB.
      void setImageB​(ModelImage _imageB, boolean disposeOldB)
      Accessor that sets the reference to imageB.
      void setImageSelectorPanelVisible​(boolean visible)
      this method either shows or hides the image selector panel, based on the value of the parameter.
      void setIntensityDropper​(float intensityDropper)
      Sets paint intensity in axial image.
      void setIntensityPaintName​(float intensityDropper)
      Sets integer value on intensityPaintButton.
      void setLinkButtonSelected​(boolean selected)
      Sets whether the linking button should be set for this image, implies that this image will be linked to another tri-frame when true
      void setLUTa​(ModelLUT LUT)
      Accessor that sets the LUT.
      void setLUTb​(ModelLUT LUT)
      Accessor that sets the LUT.
      void setModified()  
      protected void setOldLayout​(boolean bLayout)
      Transition between the 2x2 window layout and 3x1 window layout:
      void setPaintBitmapSwitch​(boolean paintBitmapSwitch)
      When switching the active image, take the paintBitmap of the previous active image as the paintBitmap of the new active image Currenlty unused.
      void setPaintColor​(java.awt.Color color)
      Sets the color of the paint.
      void setPaintMask​(java.util.BitSet mask)  
      void setPositionLabels​(int x, int y, int z)
      Sets the labels which show the absolute position within the image volume and the patient position.
      void setRGBTA​(ModelRGB RGBT)
      Sets the RGB table for ARGB image A.
      void setRGBTB​(ModelRGB RGBT)
      Sets the RGB table for image B.
      void setSlice​(int slice)
      Does nothing.
      void setSlices​(int x, int y, int z)
      Sets the slice index for each plane in the frame and components.
      void setSlicesFromFrame​(int x, int y, int z)
      Called from the "normal" image component, sets the slices for the tri planar view to display.
      private void setSpinnerValues​(int type)
      Sets the spinner values based on image type.
      protected void setTalairachPositionLabels​(int x, int y, int z)
      Sets the labels that refer to Talairach position within the image.
      void setTimeSlice​(int slice)
      Sets the slice to be displayed and updates title frame.
      void setTimeSlice​(int slice, boolean checkedLinkedScroll)
      Sets the slice to be displayed and updates title frame.
      void setTitle()
      Sets the title bar for the tri-image frame.
      void setTraverseButton()
      Sets the traverse button to selected.
      void settTalVoxLabelText​(java.lang.String text)  
      private void setVolumeBounds​(WildMagic.LibFoundation.Mathematics.Vector3f lower, WildMagic.LibFoundation.Mathematics.Vector3f upper)
      Sets the CubeBounds data member volumeBounds to the crop volume defined by the lower and upper volume points.
      void setVolumeCenter​(int x, int y, int z)
      Sets the x coordinate of the point to be the center of the transformed image.
      void setVolumeCenter​(Point3D newVolumeCenter)
      Sets the x coordinate of the point to be the center of the transformed image.
      void setXSliceHairColor​(java.awt.Color c)
      Sets the color of the X slice crosshairs.
      void setYSliceHairColor​(java.awt.Color c)
      Sets the color of the Y slice crosshairs.
      void setZSliceHairColor​(java.awt.Color c)
      Sets the color of the Z slice crosshairs.
      void stateChanged​(javax.swing.event.ChangeEvent e)
      Sets values based on knob along time slider.
      private void talairachGoTo()
      Method that goes to the talairach coordinate that is entered
      void updateData()  
      protected void updateHistoLUTFrame​(int imageAorB)
      Deprecated. 
      boolean updateImageExtents()
      Do nothing - required by ViewJFrameBase.
      boolean updateImages()
      This methods calls the componentImage's update method to redraw the screen.
      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 updateImageSubset​(ViewJComponentTriImage triImage)
      DOCUMENT ME!
      protected void updateLayout()
      This method should be called whenever the layout of the tri-images has changed.
      protected void updatePaint​(java.util.BitSet paintMap)
      The purpose of this method is to set the paint bitmap so that it is the same for all 9 images.
      void windowClosing​(java.awt.event.WindowEvent event)
      Closes window and disposes of frame and component.
      void windowOpened​(java.awt.event.WindowEvent event)
      Does nothing.
      protected void zoomInFrame​(int frame)
      this method will zoom in a particular frame.
      protected void zoomOutFrame​(int frame)
      this method will zoom out a particular frame.

      • Methods inherited from class javax.swing.JFrame

        addImpl, createRootPane, frameInit, getAccessibleContext, getContentPane, getDefaultCloseOperation, getGlassPane, getGraphics, getJMenuBar, 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, 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 Detail

      • IMAGE_ALIGN_TOOLBAR

        protected static final java.lang.String IMAGE_ALIGN_TOOLBAR
        See Also:
        Constant Field Values

      • serialVersionUID

        private static final long serialVersionUID
        Use serialVersionUID for interoperability.
        See Also:
        Constant Field Values

      • ATLAS_BBOX_LAT

        public static final float ATLAS_BBOX_LAT
        Dimensions used for Talairach view clipping box - lateral.
        See Also:
        Constant Field Values

      • ATLAS_BBOX_ANT

        public static final float ATLAS_BBOX_ANT
        Dimensions used for Talairach view clipping box - anterior.
        See Also:
        Constant Field Values

      • ATLAS_BBOX_POS

        public static final float ATLAS_BBOX_POS
        Dimensions used for Talairach view clipping box - posterior.
        See Also:
        Constant Field Values

      • ATLAS_BBOX_INF

        public static final float ATLAS_BBOX_INF
        Dimensions used for Talairach view clipping box - inferior.
        See Also:
        Constant Field Values

      • ATLAS_BBOX_SUP

        public static final float ATLAS_BBOX_SUP
        Dimensions used for Talairach view clipping box - superior.
        See Also:
        Constant Field Values

      • ATLAS_BBOX_INF_NEW

        public static final float ATLAS_BBOX_INF_NEW
        Dimensions used for Talairach view clipping box - inferior new. 3/06/96: extra 10 mm for cerebellum .
        See Also:
        Constant Field Values

      • ATLAS_AC_TO_LAT

        public static final float ATLAS_AC_TO_LAT
        Dimensions used for Talairach coordinates - lateral.
        See Also:
        Constant Field Values

      • ATLAS_AC_TO_ANT

        public static final float ATLAS_AC_TO_ANT
        Dimensions used for Talairach coordinates - anterior.
        See Also:
        Constant Field Values

      • ATLAS_PC_TO_POS

        public static final float ATLAS_PC_TO_POS
        Dimensions used for Talairach coordinates - posterior.
        See Also:
        Constant Field Values

      • ATLAS_AC_TO_INF

        public static final float ATLAS_AC_TO_INF
        Dimensions used for Talairach coordinates - inferior.
        See Also:
        Constant Field Values

      • ATLAS_AC_TO_SUP

        public static final float ATLAS_AC_TO_SUP
        Dimensions used for Talairach coordinates - superior.
        See Also:
        Constant Field Values

      • ATLAS_AC_TO_PC

        public static final float ATLAS_AC_TO_PC
        AC to PC dimension.
        See Also:
        Constant Field Values

      • NUM_INVISIBLE_BUTTONS

        protected static final int NUM_INVISIBLE_BUTTONS
        We want to be able to toggle the bounding box button, but don't want it to be part of any other button group. The button group can't be programmatically set to "unselected" after its already been selected. To emulate this behavior, I'm adding an invisible button to the button group that will be "toggled" on and off when the user clicks the bounding box button. These two buttons will act as the button group.
        See Also:
        Constant Field Values

      • MAX_INITIAL_TRI_IMAGES

        public static final int MAX_INITIAL_TRI_IMAGES
        Maximum number of initial tri-images!
        See Also:
        Constant Field Values

      • OLD_LAYOUT

        protected static final java.lang.String OLD_LAYOUT
        A constant for which to test in the actionPerformed.
        See Also:
        Constant Field Values

      • PANEL_PLUGIN

        protected static final java.lang.String PANEL_PLUGIN
        A constant for which to test in the actionPerformed.
        See Also:
        Constant Field Values

      • DEFAULT_OPTIMAL_ZOOM

        protected static final int DEFAULT_OPTIMAL_ZOOM
        Constant to determine how many pixels would be optimal for the image to be initially zoomed to.
        See Also:
        Constant Field Values

      • scrollPane

        public javax.swing.JScrollPane[] scrollPane
        DOCUMENT ME!

      • triImagePanel

        public javax.swing.JPanel[] triImagePanel
        DOCUMENT ME!

      • btnInvisible

        protected javax.swing.JToggleButton[] btnInvisible
        DOCUMENT ME!

      • bufferFactor

        protected int bufferFactor
        1 for black and white, 4 for color.

      • centerButtonSelected

        protected boolean centerButtonSelected
        DOCUMENT ME!

      • chkShowTalairachGrid

        protected javax.swing.JCheckBox chkShowTalairachGrid
        "Show talairach grid" checkbox.

      • chkShowTalairachGridMarkers

        protected javax.swing.JCheckBox chkShowTalairachGridMarkers
        "Show talairach gridmarkers" checkbox.

      • color

        protected java.awt.Color color
        Color of the paint.

      • colorChooser

        protected ViewJColorChooser colorChooser
        Color chooser to use when selecting paint color.

      • colorPaintButton

        protected javax.swing.JButton colorPaintButton
        Button for changing the color of the paint.

      • controls

        protected ViewControlsImage controls
        Used to obtain initial paint opacity and color.

      • coordinateListeners

        protected java.util.Vector<CoordinateChangeListener> coordinateListeners
        A list of CoordinateChangeListeners who want to know about changes to the coordinate currently pointed to by the tri-image frame's crosshairs.

      • crosshairSpinner

        protected javax.swing.JSpinner crosshairSpinner
        Spinner component for the crosshair gap size.

      • currentAbsolutePositionLabels

        protected Point3D currentAbsolutePositionLabels
        The current values of the absolute position labels.

      • defaultPreferredHeight

        protected int defaultPreferredHeight
        The default hight of the window, if it cannot be calculated.

      • extents

        protected int[] extents
        Extents of image.

      • imageToolBar

        protected javax.swing.JToolBar imageToolBar
        Image control toolbar.

      • VOIGroup

        protected javax.swing.ButtonGroup VOIGroup

      • imageAlignToolBar

        protected javax.swing.JToolBar imageAlignToolBar

      • intensitySpinner

        protected javax.swing.JSpinner intensitySpinner
        Spinner component for the paint intensity.

      • talairachPanel

        protected javax.swing.JPanel talairachPanel
        Panel for Talairach position display.

      • viewPanel

        protected javax.swing.JPanel viewPanel
        Panel for switching between radiological and neurological viewing conventions.

      • labelXTal

        protected javax.swing.JTextField labelXTal
        Label the Talairach position x value in the image volume.

      • labelYTal

        protected javax.swing.JTextField labelYTal
        Label the Talairach position y value in the image volume.

      • labelZTal

        protected javax.swing.JTextField labelZTal
        Label the Talairach position z value in the image volume.

      • xTalLabel

        protected javax.swing.JLabel xTalLabel

      • yTalLabel

        protected javax.swing.JLabel yTalLabel

      • zTalLabel

        protected javax.swing.JLabel zTalLabel

      • oldLayout

        protected boolean oldLayout
        DOCUMENT ME!

      • OPACITY

        protected float OPACITY
        Opacity of paint.

      • paintBrushNames

        protected java.lang.String[] paintBrushNames
        List of built-in and user-defined paint brushes.

      • paintToolBar

        protected javax.swing.JToolBar paintToolBar
        Paint tool bar.

      • borderPaintButton

        public javax.swing.JToggleButton borderPaintButton

      • bogusBorderPaintButton

        public javax.swing.JToggleButton bogusBorderPaintButton

      • panelActiveImage

        protected javax.swing.JPanel panelActiveImage
        Panel for deciding which image is active; appears when 2 images are loaded.

      • panelToolbar

        protected javax.swing.JPanel panelToolbar
        Panel that holds the toolbars.

      • panelToolBarGBC

        protected java.awt.GridBagConstraints panelToolBarGBC

      • parentFrame

        protected ViewJFrameImage parentFrame
        Reference to the parent window.

      • pluginPanel

        protected java.awt.Component pluginPanel
        Reference to the plug-in panel in the 2x2 (old) layout.

      • radioImageA

        protected javax.swing.JRadioButton radioImageA
        Radio button for selecting image A as active.

      • radioImageB

        protected javax.swing.JRadioButton radioImageB
        Radio button for selecting image B as active.

      • radioImageBoth

        protected javax.swing.JRadioButton radioImageBoth
        Radio button for selecting both images as active.

      • resols

        protected float[] resols
        Resolutions of image.

      • scrollOriginalCrosshair

        protected boolean scrollOriginalCrosshair
        Flag telling the crosshair movement to update slice in original image frame.

      • showTalairachGrid

        protected boolean showTalairachGrid
        Flag for showing the Talairach grid on the component images.

      • showTalairachPosition

        protected boolean showTalairachPosition
        Flag for showing the Talairach position on the component images.

      • tDim

        protected int tDim
        Time dimension of the original image.

      • tImageSlider

        protected javax.swing.JSlider tImageSlider
        Slider for 4D images, time dimension.

      • traverseButton

        protected javax.swing.JToggleButton traverseButton
        Button for traversing the images.

      • tSlice

        protected int tSlice
        Time slice that this image is on.

      • units

        protected int[] units
        Units of image - mm, inches, etc.

      • useInfNew

        protected boolean useInfNew
        if true use cerebellum-adjusted static variable.

      • volumeCenter

        protected int[] volumeCenter
        The point to become center of transformed image.

      • volumePositionFrame

        protected VolumePositionFrame volumePositionFrame
        Reference to the volume coordinate frame.

      • volumePositionPanel

        protected javax.swing.JPanel volumePositionPanel
        Reference to the volume coordinate panel when it is in the plug-in position.

      • zoom

        protected float zoom
        Magnification for image.

      • addPointToggleButton

        protected javax.swing.JToggleButton addPointToggleButton
        Toggle buttons for voi/points

      • dropperPaintToggleButton

        protected javax.swing.JToggleButton dropperPaintToggleButton
        Toggle buttons for voi/points

      • paintCanToggleButton

        protected javax.swing.JToggleButton paintCanToggleButton
        Toggle buttons for voi/points

      • indivMagButton

        protected javax.swing.JToggleButton indivMagButton
        refs to indiviadual frame zooming in and out buttons.

      • indivMinButton

        protected javax.swing.JToggleButton indivMinButton
        refs to indiviadual frame zooming in and out buttons.

      • leastSquaresButton

        protected javax.swing.JButton leastSquaresButton
        DOCUMENT ME!

      • magButton

        protected javax.swing.JButton magButton
        refs to the magnify and minimize button.*

      • minButton

        protected javax.swing.JButton minButton
        refs to the magnify and minimize button.*

      • paintBox

        protected javax.swing.JComboBox paintBox
        Box holding the list of available paint brushes.

      • paintBrushLocked

        private boolean paintBrushLocked
        used with the above to say the paint brush has been changed, waiting to change back.

      • quickPaintBrushIndex

        private int quickPaintBrushIndex
        int used for quick-key painting for speedier paint brush access.

      • scrollButton

        protected javax.swing.JCheckBox scrollButton
        The button that indicates whether this triframe is linked with tri-frames of similar dimensionality.

      • spinnerDefaultValue

        private double spinnerDefaultValue
        Used to setup the paint spinner.

      • spinnerMin

        private double spinnerMin
        Used to setup the paint spinner.

      • spinnerMax

        private double spinnerMax
        Used to setup the paint spinner.

      • spinnerStep

        private double spinnerStep
        Used to setup the paint spinner.

      • tpSplineButton

        protected javax.swing.JButton tpSplineButton
        DOCUMENT ME!

      • volumeBounds

        private CubeBounds volumeBounds
        Volume Boundary may be changed for cropping the volume.

      • voiMenu

        protected javax.swing.JMenu voiMenu
        Menu displaying VOI options

      • iTalLabel

        protected javax.swing.JLabel iTalLabel
        talaraich intensity label*

      • tTalVoxLabel

        public javax.swing.JLabel tTalVoxLabel
        talairach voxel label *

      • currentOrientation

        private int currentOrientation

      • RGBTa

        protected ModelRGB RGBTa
        RGB tables for imageA and imageB

      • RGBTb

        protected ModelRGB RGBTb
        RGB tables for imageA and imageB

      • v

        static int v

    • Constructor Detail

      • ViewJFrameTriImage

        public ViewJFrameTriImage​(ModelImage _imageA,
                          ModelImage _imageB)
        Creates a JFrameBase without calling gui initialization, init() must be called after pre-processing has completed.
        Parameters:
        _imageA - First image to display
        _imageB - Second loaded image

      • ViewJFrameTriImage

        public ViewJFrameTriImage​(ModelImage _imageA,
                          ModelLUT LUTa,
                          ModelImage _imageB,
                          ModelLUT LUTb,
                          ViewControlsImage controls,
                          ViewJFrameImage parent)
        Make 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)
        _imageB - Second loaded image
        LUTb - LUT of the imageB
        controls - controls used to obtain initial OPACITY and color
        parent - main user interface frame.

    • Method Detail

      • actionPerformed

        public void actionPerformed​(java.awt.event.ActionEvent event)
        Calls various methods depending on the action.
        Specified by:
        actionPerformed in interface java.awt.event.ActionListener
        Specified by:
        actionPerformed in class ViewJFrameBase
        Parameters:
        event - event that triggered function

      • scannerRASGoTo

        private void scannerRASGoTo()
        Method that goes to the ras coordinate that is entered

      • scannerLPSGoTo

        private void scannerLPSGoTo()
        Method that goes to the lps coordinate that is entered

      • absoluteGoTo

        public void absoluteGoTo()
        Method that goes to the absolute voxel coordinate that is entered

      • talairachGoTo

        private void talairachGoTo()
        Method that goes to the talairach coordinate that is entered

      • addCoordinateChangeListener

        public void addCoordinateChangeListener​(CoordinateChangeListener listener)
        Add someone who wants to be notified about crosshair coordinate changes.
        Parameters:
        listener - the listener

      • addTabbedPane

        public void addTabbedPane()
        Called when the volumePositionFrame closes, the volumePositionPanel is again displayed in the window:.

      • closeImageB

        public void closeImageB()
        Closes the image B and performs cleanup.
        Overrides:
        closeImageB in class ViewJFrameBase

      • disposeLocal

        public void disposeLocal()
        Should be called when window is closing to perform cleanup.

      • enableBoth

        public void enableBoth​(boolean bEnable)

      • getAxialComponentSlice

        public int getAxialComponentSlice()
        Gets the axial position of the slice.
        Returns:
        The axial location in the slice.

      • getBoundedVolume

        public CubeBounds getBoundedVolume()
        Returns the crop bounding volume as a CubeBounds object.
        Returns:
        volumeBounds the crop volume

      • getCenter

        public int[] getCenter()
        Sets the x coordinate of the point to be the center of the transformed image.
        Returns:
        DOCUMENT ME!

      • getCoronalComponentSlice

        public int getCoronalComponentSlice()
        Gets the y position of the slice.
        Returns:
        The y location in the slice.

      • getCurrentPositionLabels

        public Point3D getCurrentPositionLabels()
        Get the last point that the position labels got set to.
        Returns:
        the current values for the absolute position labels

      • getLinkedTriFrame

        public ViewJFrameTriImage getLinkedTriFrame()
        Gets the linked ViewJFrameTriImage.
        Returns:
        linkedFrame

      • getParentFrame

        public ViewJFrameImage getParentFrame()
        Returns a reference to the ViewJFrameImage object that is the parent of this frame.
        Returns:
        a reference to the ViewJFrameImage object that is the parent of this frame

      • getSagittalComponentSlice

        public int getSagittalComponentSlice()
        Gets the x position of the slice.
        Returns:
        The x location in the slice.

      • getSelectedImage

        public int getSelectedImage()
        Returns an integer which represents the image that is selected. The possible values are ViewJComponentBase.BOTH, ViewJComponentBase.IMAGE_A, ViewJComponentBase.IMAGE_B
        Returns:
        int the image that is selected in the active image panel

      • getTriImage

        public ViewJComponentTriImage getTriImage​(int index)
        Returns a reference to one of the component tri-image components.
        Parameters:
        index - int the index of the component tri-image to get. Possibilies are AXIAL_A, AXIAL_B, AXIAL_AB, CORONAL_A, CORONAL_B, CORONAL_AB, SAGITTAL_A, SAGITTAL_B, SAGITTAL_AB
        Returns:
        ViewJComponentTriImage

      • getXSliceHairColor

        public java.awt.Color getXSliceHairColor()
        Gets the color of the X slice crosshair.
        Returns:
        Color the color of the X slice crosshair

      • getYSliceHairColor

        public java.awt.Color getYSliceHairColor()
        Gets the color of the Y slice crosshair.
        Returns:
        Color the color of the Y slice crosshair

      • getZSliceHairColor

        public java.awt.Color getZSliceHairColor()
        Gets the color of the Z slice crosshair.
        Returns:
        Color the color of the Z slice crosshair

      • isFocusable

        public boolean isFocusable()
        Always returns true.
        Overrides:
        isFocusable in class java.awt.Component
        Returns:
        boolean always returns true

      • itemStateChanged

        public void itemStateChanged​(java.awt.event.ItemEvent event)
        Does setBorderPainted for the appropriate button.
        Specified by:
        itemStateChanged in interface java.awt.event.ItemListener
        Parameters:
        event - Event that triggered this function

      • keyPressed

        public void keyPressed​(java.awt.event.KeyEvent e)
        keyPressed event method for KeyListener.
        Specified by:
        keyPressed in interface java.awt.event.KeyListener
        Parameters:
        e - KeyEvent

      • keyReleased

        public void keyReleased​(java.awt.event.KeyEvent e)
        keyReleased event method for KeyListener.
        Specified by:
        keyReleased in interface java.awt.event.KeyListener
        Parameters:
        e - KeyEvent

      • keyTyped

        public void keyTyped​(java.awt.event.KeyEvent e)
        DOCUMENT ME!
        Specified by:
        keyTyped in interface java.awt.event.KeyListener
        Parameters:
        e - DOCUMENT ME!

      • mouseClicked

        public void mouseClicked​(java.awt.event.MouseEvent event)
        DOCUMENT ME!
        Specified by:
        mouseClicked in interface java.awt.event.MouseListener
        Parameters:
        event - DOCUMENT ME!

      • mouseEntered

        public void mouseEntered​(java.awt.event.MouseEvent event)
        DOCUMENT ME!
        Specified by:
        mouseEntered in interface java.awt.event.MouseListener
        Parameters:
        event - DOCUMENT ME!

      • mouseExited

        public void mouseExited​(java.awt.event.MouseEvent event)
        DOCUMENT ME!
        Specified by:
        mouseExited in interface java.awt.event.MouseListener
        Parameters:
        event - DOCUMENT ME!

      • mousePressed

        public void mousePressed​(java.awt.event.MouseEvent event)
        DOCUMENT ME!
        Specified by:
        mousePressed in interface java.awt.event.MouseListener
        Parameters:
        event - DOCUMENT ME!

      • mouseReleased

        public void mouseReleased​(java.awt.event.MouseEvent event)
        DOCUMENT ME!
        Specified by:
        mouseReleased in interface java.awt.event.MouseListener
        Parameters:
        event - DOCUMENT ME!

      • 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. Currently unused.
        Specified by:
        removeControls in class ViewJFrameBase

      • removeCoordinateChangeListener

        public void removeCoordinateChangeListener​(CoordinateChangeListener listener)
        Remove a coordinate change listener from this frame's list.
        Parameters:
        listener - a coordinate change listener (hopefully in the list..)

      • setActiveImage

        public void setActiveImage​(int active)
        Set 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 - ViewJComponentBase.IMAGE_A or ViewJComponentBase.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

      • setCenter

        public void setCenter​(int i,
                      int j,
                      int k)
        sets the crosshair positions and slices for each of the triImages. The inputs are in FileCoordinates, and are passed to the triImages in FileCoordinates. Each triImage converts from FileCoordinates to the local PatientCoordinate space, based on the triImage orientation (FileInfoBase.AXIAL, FileInfoBase.CORONAL, FileInfoBase.SAGITTAL).
        Parameters:
        i - model space coordinate
        j - model space coordinate
        k - model space coordinate

      • setCenter

        public void setCenter​(int i,
                      int j,
                      int k,
                      boolean checkLinkedScroll)
        sets the crosshair positions and slices for each of the triImages. The inputs are in FileCoordinates, and are passed to the triImages in FileCoordinates. Each triImage converts from FileCoordinates to the local PatientCoordinate space, based on the triImage orientation (FileInfoBase.AXIAL, FileInfoBase.CORONAL, FileInfoBase.SAGITTAL).
        Parameters:
        i - model space coordinate
        j - model space coordinate
        k - model space coordinate
        checkLinkedScroll - (boolean telling whether to look for linked images to sync scroll... necessary to avoid infinite loop)

      • 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. Currently unused.
        Specified by:
        setControls in class ViewJFrameBase

      • setCrop

        public void setCrop​(WildMagic.LibFoundation.Mathematics.Vector3f lower,
                    WildMagic.LibFoundation.Mathematics.Vector3f upper)
        Sets the new crop volume in the ViewJComponentTriImage frames and sets the volumeBounds.
        Parameters:
        lower - the lower corner of the crop volume in File Coordinates
        upper - the upper corner of the crop volume in File Coordinates

      • setDefault

        public void setDefault()
        Sets modes in all images to ViewJComponentBase.DEFAULT.

      • 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

      • setImageA

        public void setImageA​(ModelImage image)
        Changes imageA to a new model image reference. Swaps the references in the frame and all the component images.
        Overrides:
        setImageA in class ViewJFrameBase
        Parameters:
        image - the new image to use

      • setImageB

        public void setImageB​(ModelImage _imageB)
        Accessor that sets the reference to imageB. Includes changing the frame's reference and the references the components keep.
        Specified by:
        setImageB in class ViewJFrameBase
        Parameters:
        _imageB - image to set the frame to

      • setImageB

        public void setImageB​(ModelImage _imageB,
                      boolean disposeOldB)
        Accessor that sets the reference to imageB. Includes changing the frame's reference and the references the components keep. Unlike setImageB(ModelImage) this method matches the functionality of setImageA(ModelImage)
        Parameters:
        _imageB - image to set the frame to

      • setImageSelectorPanelVisible

        public void setImageSelectorPanelVisible​(boolean visible)
        this method either shows or hides the image selector panel, based on the value of the parameter.
        Parameters:
        visible - DOCUMENT ME!

      • setIntensityDropper

        public void setIntensityDropper​(float intensityDropper)
        Sets paint intensity in axial image.
        Parameters:
        intensityDropper - the paint intensity value for the XY image

      • setIntensityPaintName

        public void setIntensityPaintName​(float intensityDropper)
        Sets integer value on intensityPaintButton.
        Parameters:
        intensityDropper - the paint button intensity value to show

      • setLUTa

        public void setLUTa​(ModelLUT LUT)
        Accessor that sets the LUT.
        Overrides:
        setLUTa in class ViewJFrameBase
        Parameters:
        LUT - the LUT

      • setLUTb

        public void setLUTb​(ModelLUT LUT)
        Accessor that sets the LUT.
        Overrides:
        setLUTb in class ViewJFrameBase
        Parameters:
        LUT - the LUT

      • setPaintBitmapSwitch

        public void setPaintBitmapSwitch​(boolean paintBitmapSwitch)
        When switching the active image, take the paintBitmap of the previous active image as the paintBitmap of the new active image Currenlty unused.
        Specified by:
        setPaintBitmapSwitch in class ViewJFrameBase
        Parameters:
        paintBitmapSwitch - if true don't do a getMask on the new actve image

      • setPaintColor

        public void setPaintColor​(java.awt.Color color)
        Sets the color of the paint.
        Parameters:
        color - Color the desired color of the paint

      • setPositionLabels

        public void setPositionLabels​(int x,
                              int y,
                              int z)
        Sets the labels which show the absolute position within the image volume and the patient position.
        Parameters:
        x - the x volume coordinate
        y - the y volume coordinate
        z - the z volume coordinate

      • setRGBTA

        public void setRGBTA​(ModelRGB RGBT)
        Sets the RGB table for ARGB image A.
        Specified by:
        setRGBTA in class ViewJFrameBase
        Parameters:
        RGBT - the new RGB transfer functions for imageA

      • setRGBTB

        public void setRGBTB​(ModelRGB RGBT)
        Sets the RGB table for image B.
        Specified by:
        setRGBTB in class ViewJFrameBase
        Parameters:
        RGBT - the new RGB transfer functions for imageB

      • setLinkButtonSelected

        public void setLinkButtonSelected​(boolean selected)
        Sets whether the linking button should be set for this image, implies that this image will be linked to another tri-frame when true

      • setSlice

        public void setSlice​(int slice)
        Does nothing.
        Specified by:
        setSlice in interface ViewImageUpdateInterface
        Parameters:
        slice - the slice to show

      • setSlices

        public void setSlices​(int x,
                      int y,
                      int z)
        Sets the slice index for each plane in the frame and components. Should be zero indexed.
        Parameters:
        x - slice index in the patient
        y - slice index in the patient
        z - slice index in the patient

      • setSlicesFromFrame

        public void setSlicesFromFrame​(int x,
                               int y,
                               int z)
        Called from the "normal" image component, sets the slices for the tri planar view to display. Parameters are in terms of the image volume and so must be converted.
        Parameters:
        x - X Slice of image.
        y - Y Slice of image.
        z - Z Slice of image.

      • 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 checkedLinkedScroll)
        Sets the slice to be displayed and updates title frame.
        Parameters:
        slice - indicates image time-slice (4th dimension) to be displayed
        checkedLinkedScroll - whether corresponding tri-frames should also be scrolled

      • setTitle

        public void setTitle()
        Sets the title bar for the tri-image frame. Called for initialization and updating. Displays time series location for 4D volumes.
        Specified by:
        setTitle in class ViewJFrameBase

      • setTraverseButton

        public void setTraverseButton()
        Sets the traverse button to selected.

      • setVolumeCenter

        public void setVolumeCenter​(Point3D newVolumeCenter)
        Sets the x coordinate of the point to be the center of the transformed image.
        Parameters:
        newVolumeCenter - The x coordinate of the center.

      • setVolumeCenter

        public void setVolumeCenter​(int x,
                            int y,
                            int z)
        Sets the x coordinate of the point to be the center of the transformed image.
        Parameters:
        x - The x coordinate of the center.
        y - DOCUMENT ME!
        z - DOCUMENT ME!

      • setXSliceHairColor

        public void setXSliceHairColor​(java.awt.Color c)
        Sets the color of the X slice crosshairs.
        Parameters:
        c - Color the color to set the X slice to

      • setYSliceHairColor

        public void setYSliceHairColor​(java.awt.Color c)
        Sets the color of the Y slice crosshairs.
        Parameters:
        c - Color the color to set the Y slice to

      • setZSliceHairColor

        public void setZSliceHairColor​(java.awt.Color c)
        Sets the color of the Z slice crosshairs.
        Parameters:
        c - Color the color to set the Z slice to

      • stateChanged

        public void stateChanged​(javax.swing.event.ChangeEvent e)
        Sets values based on knob along time slider.
        Specified by:
        stateChanged in interface javax.swing.event.ChangeListener
        Overrides:
        stateChanged in class ViewJFrameBase
        Parameters:
        e - Event that triggered this function

      • updateImages

        public boolean updateImages()
        This methods calls the componentImage's update method to redraw the screen.
        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 reimport 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 reimport 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 reimport image and calc. java image
        interpMode - image interpolation method (Nearest or Smooth)
        Returns:
        boolean confirming successful update

      • updateImageSubset

        public void updateImageSubset​(ViewJComponentTriImage triImage)
        DOCUMENT ME!
        Parameters:
        triImage - DOCUMENT ME!

      • windowClosing

        public void windowClosing​(java.awt.event.WindowEvent event)
        Closes window and disposes of frame and component.
        Specified by:
        windowClosing in interface java.awt.event.WindowListener
        Overrides:
        windowClosing in class ViewJFrameBase
        Parameters:
        event - Event that triggered function

      • windowOpened

        public void windowOpened​(java.awt.event.WindowEvent event)
        Description copied from class: ViewJFrameBase
        Does nothing.
        Specified by:
        windowOpened in interface java.awt.event.WindowListener
        Overrides:
        windowOpened in class ViewJFrameBase
        Parameters:
        event - the window event

      • buildActiveImagePanel

        protected void buildActiveImagePanel()
        Builds the active image panel for choosing which image (A, B, or BOTH) to perform operations on.

      • buildDisabledTextButton

        protected void buildDisabledTextButton​(java.lang.String text,
                                       java.lang.String toolTip,
                                       java.lang.String action,
                                       javax.swing.JToolBar toolbar)
        Helper method to build a text button for the toolbar.
        Parameters:
        text - Text for button.
        toolTip - Tool tip to be associated with button.
        action - Action command for button.
        toolbar - Tool bar to add this button to.

      • buildIconButton

        protected void buildIconButton​(java.lang.String icon,
                               java.lang.String toolTip,
                               java.lang.String action,
                               java.lang.String iconroll,
                               javax.swing.JToolBar toolbar)
        Helper method to build an icon button for the toolbar.
        Parameters:
        icon - Name of icon for button.
        toolTip - Tool tip to be associated with button.
        action - Action command for button.
        iconroll - Name of icon for rollover.
        toolbar - Tool bar to add this button to.

      • buildMenu

        protected javax.swing.JMenuBar buildMenu()
        Builds menus for the tri-planar view.
        Returns:
        the tri-image frame menu bar

      • buildToolbarMenu

        protected javax.swing.JMenu buildToolbarMenu​(boolean showPaintToolbar)

      • buildNamedTextButton

        protected javax.swing.JButton buildNamedTextButton​(java.lang.String text,
                                                   java.lang.String toolTip,
                                                   java.lang.String action,
                                                   javax.swing.JToolBar toolbar)
        Helper method to build a text button for the toolbar.
        Parameters:
        text - Text for button.
        toolTip - Tool tip to be associated with button.
        action - Action command for button.
        toolbar - Tool bar to add this button to.
        Returns:
        the new named text button

      • buildProgressBar

        protected void buildProgressBar​(java.lang.String imageName,
                                java.lang.String message,
                                int start,
                                int end)
        Constructs progress bar.
        Parameters:
        imageName - The name of the image.
        message - Message to be displayed in the frame
        start - Start (typical = 0)
        end - End (typical = 100)

      • buildTImageSliderLabels

        protected java.util.Hashtable<java.lang.Integer,​javax.swing.JLabel> buildTImageSliderLabels​(int min,
                                                                                                  int max)
        Builds the slider labels for the time slider.
        Parameters:
        min - Min value of slider
        max - Max value of slider.
        Returns:
        Slider labels hash.

      • buildToggleButton

        protected void buildToggleButton​(java.lang.String icon,
                                 java.lang.String toolTip,
                                 java.lang.String action,
                                 java.lang.String iconroll,
                                 javax.swing.ButtonGroup group,
                                 javax.swing.JToolBar toolbar)
        Helper method to build a toggle button for the toolbar.
        Parameters:
        icon - Name of icon for button.
        toolTip - Tool tip to be associated with button.
        action - Action command for button.
        iconroll - Name of icon for rollover.
        group - Button group to add this toggle to.
        toolbar - Tool bar to add this button to.

      • buildToggleButton

        protected void buildToggleButton​(java.lang.String icon,
                                 java.lang.String toolTip,
                                 java.lang.String action,
                                 java.lang.String iconroll,
                                 javax.swing.ButtonGroup group,
                                 javax.swing.JToolBar toolbar,
                                 boolean selected)
        Helper method to build a toggle button for the toolbar.
        Parameters:
        icon - Name of icon for button.
        toolTip - Tool tip to be associated with button.
        action - Action command for button.
        iconroll - Name of icon for rollover.
        group - Button group to add this toggle to.
        toolbar - Tool bar to add this button to.
        selected - whether or not the button is initially selected

      • buildToolbars

        protected void buildToolbars()
        Builds the toolbars for the tri-planar view.

      • buildMagToolBar

        protected javax.swing.JToolBar buildMagToolBar​(int boxLayout)
        Builds the image toolbar for zooming
        Parameters:
        boxLayout - the layout to apply
        Returns:
        imageToolBar

      • buildPaintToolBar

        protected javax.swing.JToolBar buildPaintToolBar​(int boxLayout)
        Builds the paint toolbar
        Parameters:
        boxLayout - layout to apply
        Returns:
        the paintToolBar

      • buildImageAlignToolBar

        protected void buildImageAlignToolBar()

      • buildTriImage

        protected ViewJComponentTriImage buildTriImage​(ModelImage imageA,
                                               ModelLUT lutA,
                                               ModelRGB RGBTa,
                                               ModelImage imageB,
                                               ModelLUT lutB,
                                               ModelRGB RGBTb,
                                               int orientation)
        This method creates an image from the two ModelImage objects and ModelLUT objects passed as parameters.
        Parameters:
        imageA - ModelImage image A
        lutA - ModelLUT image A's LUT
        imageB - ModelImage image B
        lutB - ModelLUT image B's LUT
        orientation - the desired orientation of the result image
        Returns:
        ViewJComponentTriImage

      • buildVolumePositionPanel

        protected void buildVolumePositionPanel()
        Builds the volume position panel, which is the panel that sits in the plug-in area of the 2x2 tri-planar layout.

      • gettTalVoxLabel

        public javax.swing.JLabel gettTalVoxLabel()

      • settTalVoxLabelText

        public void settTalVoxLabelText​(java.lang.String text)

      • configureFrame

        protected void configureFrame()
        Constructs main frame structures for 3 images (image A only) or 9 images (image A and image B). Assumes imageA is not null. Builds the labels for the position frame. Adds the tri-images to this frame's layout.

      • doOldLayout

        protected void doOldLayout()
        This is an alternative layout arrangement. It is the original layout before the tri-planar and the dual tri-planar were merged into this class.

      • finalize

        protected void finalize()
                 throws java.lang.Throwable
        DOCUMENT ME!
        Overrides:
        finalize in class ViewJFrameBase
        Throws:
        java.lang.Throwable - DOCUMENT ME!

      • fireCoordinateChange

        protected void fireCoordinateChange​(int i,
                                    int j,
                                    int k)
        Tell coordinate change listeners about a coordinate change (after changing the coordinate to image volume space from the tri-planar space).
        Parameters:
        i - the x coordinate
        j - the y coordinate
        k - the z coordinate

      • handleLeastSquares

        protected void handleLeastSquares()
        Method handles transformations for least squares algorithm in the tri-planar frame.

      • handlePluginPanelSelection

        protected void handlePluginPanelSelection()
        This method will load a plug-in into the plug-in area of the tri-planar frame. The plug-in must extend java.awt.Component, and take this class as the only parameter to its constructor.

      • handleTPSpline

        protected void handleTPSpline()
        DOCUMENT ME!

      • init

        protected void init()
        Initialize the the image orientations and call the frame layout method 'configureFrame()'.

      • initProgressBar

        protected void initProgressBar()
        Initializes the progress bar. Sets the location relative the middle the screen and makes it visible.

      • isMultipleSameSizeTriImages

        protected boolean isMultipleSameSizeTriImages()
        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.
        Returns:
        true if there are images to operate on.

      • makeSeparator

        protected javax.swing.JButton makeSeparator()
        Makes a separator for the use in the toolbars.
        Returns:
        Separator for the toolbar.

      • setImageActiveInTriComponents

        protected void setImageActiveInTriComponents​(int activeImage)
        DOCUMENT ME!
        Parameters:
        activeImage - DOCUMENT ME!

      • setTalairachPositionLabels

        protected void setTalairachPositionLabels​(int x,
                                          int y,
                                          int z)
        Sets the labels that refer to Talairach position within the image.
        Parameters:
        x - Absolute x value in slice.
        y - Absolute y value in slice.
        z - Absolute z value in slice.

      • updateHistoLUTFrame

        protected void updateHistoLUTFrame​(int imageAorB)
        Deprecated.
        Displays histoLUT frame.
        Parameters:
        imageAorB - ViewJComponentBase.IMAGE_A or ViewJComponentBase.IMAGE_B

      • updateLayout

        protected void updateLayout()
        This method should be called whenever the layout of the tri-images has changed. For example, when image B is removed or added, this method should be called so that the frame can resize itself and properly layout the tri-image components.

      • updatePaint

        protected void updatePaint​(java.util.BitSet paintMap)
        The purpose of this method is to set the paint bitmap so that it is the same for all 9 images. The reason it is here is because I couldn't find a way to automatically set the paint bitmap without calling this method. There was a problem because if you were painting in image A, image A/B would also get painted, but not image B. Paint in image A/B resulted in image A also being painted but not image B. Painting in image B resulting in image B being the only image affected. I thought this was weird so I created this method so that all images were painted equally. -- lorsino
        Parameters:
        paintMap - BitSet the paint bitset object to set the images to

      • adjustScrollbars

        private void adjustScrollbars​(int x,
                              int y,
                              javax.swing.JScrollPane scrollPane)
        DOCUMENT ME!
        Parameters:
        x - DOCUMENT ME!
        y - DOCUMENT ME!
        scrollPane - DOCUMENT ME!

      • adjustScrollbars

        private void adjustScrollbars​(int frame,
                              int x,
                              int y)
        This method adjust the scrollbars to area where user clicked when doing individual frame zooming in and out.
        Parameters:
        frame - DOCUMENT ME!
        x - int
        y - int

      • buildLabels

        private void buildLabels()
        Convenience method created to simplify configureFrame().

      • buildLUTs

        protected void buildLUTs()
        Convenience method created to simplify configureFrame().

      • cleanVolumePositionPanel

        protected final void cleanVolumePositionPanel()
        Clears the volumePositionPanel, so it can be recreated when the volumePositionFrame is closed:.

      • getOptimalZoom

        protected float getOptimalZoom​(int desiredWidth,
                               int desiredHeight)
        Calculates the optimal zoom value for an image based on the two parameters desiredWidth and desiredHeight. Since MIPAV doesn't officially support images with differing zoom values, the zoom value returned will be that value which, when applied to the image, will ensure the image size on screen is no more than both desiredWidth or desiredHeight
        Parameters:
        desiredWidth - int the ideal width for the image displayed on-screen
        desiredHeight - int the idea height for the image displayed on-screen
        Returns:
        float the zoom value required to show the image on-screen at no more than desiredWidth and no more than desired height

      • setOldLayout

        protected void setOldLayout​(boolean bLayout)
        Transition between the 2x2 window layout and 3x1 window layout:
        Parameters:
        bLayout - the new layout, = 2x2 layout when true and 3x1 when false

      • setSpinnerValues

        private void setSpinnerValues​(int type)
        Sets the spinner values based on image type.
        Parameters:
        type - Image type (BYTE, FLOAT, ...)

      • setVolumeBounds

        private void setVolumeBounds​(WildMagic.LibFoundation.Mathematics.Vector3f lower,
                             WildMagic.LibFoundation.Mathematics.Vector3f upper)
        Sets the CubeBounds data member volumeBounds to the crop volume defined by the lower and upper volume points. The CubeBounds are ordered low to high and are checked against the volume extents.
        Parameters:
        lower - the lower bound in File Coordinates
        upper - the upper bound in File Coordinates

      • zoomInFrame

        protected void zoomInFrame​(int frame)
        this method will zoom in a particular frame.
        Parameters:
        frame - frame the frame number

      • zoomOutFrame

        protected void zoomOutFrame​(int frame)
        this method will zoom out a particular frame.
        Parameters:
        frame - frame the frame number

      • initVOI

        protected void initVOI()
        Initialize the 3D VOI interface.

      • setCurrentOrientation

        public void setCurrentOrientation​(int currentOrientation)

      • getCurrentOrientation

        public int getCurrentOrientation()