java.lang.Object
- java.awt.Component
- - java.awt.Container
  - - javax.swing.JComponent
    - - javax.swing.JPanel
      - gov.nih.mipav.view.renderer.JPanelRendererBase
        
        gov.nih.mipav.view.renderer.J3D.JPanelRendererJ3D
        
        gov.nih.mipav.view.renderer.J3D.surfaceview.JPanelSurface

All Implemented Interfaces:

java.awt.event.ActionListener, java.awt.event.FocusListener, java.awt.event.ItemListener, java.awt.event.KeyListener, java.awt.event.MouseListener, java.awt.event.MouseMotionListener, java.awt.image.ImageObserver, java.awt.MenuContainer, java.io.Serializable, java.util.EventListener, javax.accessibility.Accessible, javax.swing.event.ChangeListener, javax.swing.event.ListSelectionListener
```
public class JPanelSurface
extends JPanelRendererJ3D
implements javax.swing.event.ListSelectionListener, java.awt.event.MouseListener, java.awt.event.MouseMotionListener, javax.swing.event.ChangeListener
```
A Java3D-based dialog for surfaces represented as triangle meshes. The surfaces are displayed in the 3D viewer that already contains a 3D image. The mouse behavior is the same for the image as it is for the surfaces, so that when the user zooms or rotates, it looks like the surfaces are part of the tri-image.

Author:

David Eberly, Neva Cherniavsky

See Also:

Serialized Form

Nested Class Summary

Nested Classes
Modifier and Type	Class	Description
`(package private) class`	`JPanelSurface.CancelListener`	Cancel the color dialog, change nothing.
`(package private) class`	`JPanelSurface.OkColorListener`	Pick up the selected color and call method to change the surface color.

Nested classes/interfaces inherited from class javax.swing.JPanel
javax.swing.JPanel.AccessibleJPanel

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

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

Field Summary

Fields
Modifier and Type	Field	Description
`private int`	`activeLightBulbIndex`	Record the current active index of light bulb, which is being picked.
`private javax.swing.JLabel`	`areaLabel`	The area label.
`private javax.swing.JTextField`	`areaText`	Displays the area of triangle.
`private javax.swing.JButton`	`colorButton`	The color button, which calls a color chooser.
`private ViewJColorChooser`	`colorChooser`	Color chooser for when the user wants to change the color of the surface.
`private javax.swing.JLabel`	`colorLabel`	The color button label.
`private javax.swing.JLabel`	`comboLabel`	The polygon mode combo box label.
`private int`	`currentIndex`	Current surface index being highlighted.
`private javax.swing.JButton`	`decimateButton`	Decimate button.
`private javax.swing.JLabel`	`detailLabel`	The level of detail slider label.
`private javax.swing.JSlider`	`detailSlider`	Level of detail slider.
`private javax.swing.JLabel[]`	`detailSliderLabels`	The labels below the detail slider.
`private int[]`	`extents`
`private boolean`	`findArbitraryClipping`	flag indicates arbitrary clpping bounding frame being picked.
`private boolean`	`findProbe`	flag indicates the probe being picked.
`private static javax.vecmath.Color3f[]`	`fixedColor`	The colors for the surfaces.
`private javax.swing.JButton`	`levelSButton`	Save surface button.
`private javax.swing.JButton`	`levelVButton`	Save surface button.
`private javax.swing.JButton`	`levelWButton`	Save surface button.
`private javax.swing.JButton`	`levelXMLButton`	Save surface button.
`private javax.media.j3d.Light[]`	`lightArray`	An array of eight lights that can be used for illuminating the surfaces in the scene.
`private javax.media.j3d.BranchGroup[]`	`lightArrayBG`	The branch groups to which the lights are attached.
`private ViewJComponentLightBulbs`	`lightBulbs`	The structure for the light bulbs.
`private int[]`	`m_aiMapIndexToJPanelLightsIndex`	The index of the lights in JPanelLights is different from the order maintained here.
`private int[]`	`m_aiMapJPanelLightsIndexToIndex`	The index of the lights in JPanelLights is different from the order maintained here.
`private GeneralLight[]`	`m_akLights`	The description of the lights so they can be duplicated in the "Advanced Material Properties" dialog:.
`private javax.swing.JButton`	`m_kAdvancedMaterialOptionsButton`	The material options button, which launches the material editor window.
`(package private) javax.media.j3d.BranchGroup`	`m_kFiberTractGroup`	For displaying the fiber bundle tracts in the orthogonal slice view:
`private javax.media.j3d.BranchGroup`	`m_kGeodesicGroup`	For drawing the geodesic lines on the triangle mesh:.
`private JPanelLights`	`m_kLightsControl`	Light dialog for when the user clicks the light button.
`private javax.media.j3d.TransformGroup`	`m_kPathPositionTG`	For drawing the flythru path in the triangle mesh:.
`private javax.swing.JButton`	`m_kStereoButton`	Stereo render button, launches the JStereoWindow for viewing the ModelTriangleMesh in stereo:.
`private javax.swing.JButton`	`m_kSurfaceTextureButton`	Opens SurfaceTexture dialog:.
`private float`	`maxBox`	ModelImage max dimension: (Extents * resolutions).
`private SurfaceMask`	`mSurfaceMask`	Surface mask.
`private SurfacePaint`	`mSurfacePaint`	Paint interface/algorithm for allowing the user to interactively paint the vertices of the ModelTriangleMesh.
`private javax.swing.JLabel`	`opacityLabel`	The opacity slider label.
`private javax.swing.JSlider`	`opacitySlider`	Opacity slider, not enabled yet.
`private javax.swing.JLabel[]`	`opacitySliderLabels`	The labels below the opacity slider.
`private SurfaceRender`	`parentScene`	The parent object that holds necessary the structures to which the surfaces will be added and modified.
`private com.sun.j3d.utils.picking.PickCanvas`	`pickCanvas`	The PickCanvas object that ties together the canvas and the surfaces branch group to allow pick operations on the scene.
`private javax.swing.JComboBox`	`polygonModeCB`	The combo box for the polygon mode to display.
`private float[]`	`resolutions`
`private javax.swing.JScrollPane`	`scroller`	The scroll pane holding the panel content.
`private static long`	`serialVersionUID`	Use serialVersionUID for interoperability.
`private boolean`	`setSurfaceOpacityFlag`	Indicator for the opacity slider moves.
`private javax.swing.JButton`	`smooth1Button`	Smooth button.
`private javax.swing.JButton`	`smooth2Button`	Smooth button.
`private javax.swing.JButton`	`smooth3Button`	Smooth button.
`private com.sun.j3d.utils.geometry.Sphere`	`sphere`	Sphere showing where the user clicked in the surface.
`private javax.media.j3d.BranchGroup`	`sphereBranch`	Branch group parent of the sphere.
`private boolean`	`sphereShowing`	Flag indicating if the sphere is currently showing.
`private javax.media.j3d.TransformGroup`	`sphereTransform`	Transform group parent of the sphere.
`private javax.media.j3d.BranchGroup`	`staticLightBehaviorBG`	Static light hehavior branch group.
`private javax.media.j3d.BranchGroup`	`staticLightBG`	The branch group that holds the static light bulb.
`private ViewJComponentLightBulbs`	`staticLightBulb`	The structure for the static light bulb.
`private javax.media.j3d.TransformGroup`	`staticLightTG`	The transform group that holds the static light branch group.
`private com.sun.j3d.utils.behaviors.mouse.MouseTranslate`	`staticLightTranslate`	Static light translate behavior.
`private com.sun.j3d.utils.behaviors.mouse.MouseZoom`	`staticLightZoom`	Static light zoom behavior.
`private javax.swing.JCheckBox`	`surfaceBackFaceCB`	Check Box for surface back face culling.
`private javax.swing.JCheckBox`	`surfaceClipCB`	Check Box for surface clpping of the volume render.
`private java.lang.String`	`surfaceDirectoryName`	The directory where a surface file was last loaded/saved.
`private javax.swing.JList`	`surfaceList`	The list box in the dialog for surfaces.
`private MouseEventVector`	`surfaceOpacityEvents`	Surface opacity changes event queue.
`private int`	`surfaceOpacitySlice`	Surface volume opacity.
`private javax.swing.JCheckBox`	`surfacePickableCB`	Check Box for surface pickable.
`private javax.media.j3d.BranchGroup`	`surfaceRootBG`	The branch group that holds all the surfaces together.
`private javax.media.j3d.TransformGroup`	`surfaceRootTG`	The transform group to which the model lights are attached.
`private int`	`surfaceSliderCount`	Counter for surface opacity slider moves.
`private javax.swing.JCheckBox`	`surfaceTransparencyCB`	Check Box for surface transparency.
`private java.util.Vector<SurfaceAttributes>`	`surfaceVector`	A list of the surfaces.
`private javax.swing.JLabel`	`triangleLabel`	The number of triangles label.
`private javax.swing.JTextField`	`triangleText`	Displays the number of triangles.
`private javax.swing.JLabel`	`volumeLabel`	The volume label.
`private javax.swing.JTextField`	`volumeText`	Displays the volume of triangle.

Fields inherited from class gov.nih.mipav.view.renderer.J3D.JPanelRendererJ3D
rayBasedRender, renderBase

Fields inherited from class gov.nih.mipav.view.renderer.JPanelRendererBase
applyButton, cancelButton, cancelFlag, closeButton, helpButton, isActiveImage, mainPanel, NEW, OKButton, REPLACE, runInSeparateThread, serif12, serif12B

Fields inherited from class javax.swing.JComponent
listenerList, TOOL_TIP_TEXT_KEY, ui, UNDEFINED_CONDITION, WHEN_ANCESTOR_OF_FOCUSED_COMPONENT, WHEN_FOCUSED, WHEN_IN_FOCUSED_WINDOW

Fields inherited from class java.awt.Component
accessibleContext, BOTTOM_ALIGNMENT, CENTER_ALIGNMENT, LEFT_ALIGNMENT, RIGHT_ALIGNMENT, TOP_ALIGNMENT

Fields inherited from interface java.awt.image.ImageObserver
ABORT, ALLBITS, ERROR, FRAMEBITS, HEIGHT, PROPERTIES, SOMEBITS, WIDTH

Constructor Summary

Constructors
Constructor	Description
`JPanelSurface(SurfaceRender parent, javax.media.j3d.Canvas3D canvas, javax.media.j3d.TransformGroup surfaceRoot, float xBox, float yBox, float zBox)`	Creates the Java3D scene graph for the application.

Method Summary

All Methods Static Methods Instance Methods Concrete Methods
Modifier and Type	Method	Description
`void`	`actionPerformed(java.awt.event.ActionEvent event)`	The override necessary to be an ActionListener.
`void`	`addAttachedSurfaces()`	Add any attached surfaces the current image has in its file info (if the file info is in the xml format).
`void`	`addBranch(javax.media.j3d.BranchGroup kBranch, ModelTriangleMesh kMesh, javax.vecmath.Point3f kMeshCenter)`	Adds a BranchGroup to the display.
`void`	`addFlightPath(javax.media.j3d.Shape3D kPathShape, javax.vecmath.Point3f kPosition)`	Adds the flythru path shape and current view position to the display.
`javax.media.j3d.BranchGroup`	`addLineArray(javax.media.j3d.LineArray kLine, int iGroup)`	Called from the JDialogDTIInput.
`void`	`addMesh(ModelTriangleMesh kOld, ModelTriangleMesh kNew, java.lang.String kName)`	Called when a mesh is changed by the Geodesic class, when a mesh is cut along the geodesic curve it may be divided into two or more meshes.
`void`	`addSurface()`	Add surface to the volume image.
`void`	`addSurfaces(SurfaceAttributes[] surfaces, boolean pickable)`	Adds an array of surfaces described by their SurfaceAttributes to the scene graph.
`void`	`addSurfaces(java.lang.String dir, java.io.File surfaceFile)`	Adding the surface with specific directory and file name.
`private void`	`buildToolBar()`	Build the toolbar.
`float`	`calcVolume(ModelImage imageA, ModelTriangleMesh[] kMesh)`
`private void`	`changePolyMode(int mode)`	Changes the polygon mode of the selected surface by detaching it, calling the appropriate method, and reattaching it.
`private SurfaceAttributes[]`	`containsMesh(ModelTriangleMesh kOld)`	containsMesh returns the SurfaceAttributes[] containing the input ModelTriangleMesh parameter, where the SurfaceAttributes[] array is of length 1.
`private javax.swing.JLabel`	`createLabel(java.lang.String title)`	Creates a label in the proper font and color.
`private void`	`createSurface(SurfaceAttributes surface, boolean pickable)`	Creates a surface in the scene graph from an array of triangle meshes.
`private void`	`decimate(SurfaceAttributes[] surfaces)`	Decimate the surface.
`private void`	`displayAdvancedMaterialOptions(SurfaceAttributes[] surfaces)`	For each file in the selected list, launch the AdvancedMaterialOptions dialog:
`private void`	`displayImageAsTexture(SurfaceAttributes[] surfaces)`	Displays the selected surfaces with the ModelImage as a 3D texture map on the surface triangle mesh.
`private void`	`displayStereo(SurfaceAttributes[] surfaces)`	For each file in the selected list, launch the stereo viewer:
`void`	`dispose()`	Dispose memory.
`private com.sun.j3d.utils.picking.PickResult`	`doPick(java.awt.event.MouseEvent kEvent)`	Locate the surface that corresponds to a picking operation in the viewer window.
`private void`	`enableStaticLightBehavior(boolean flag)`	Enable static light behavior.
`void`	`enableSurfacePaint(boolean bEnable)`	Enables/Disables the SurfacePaint per-vertex functions.
`void`	`enableSurfacePaintCan(boolean bEnable)`	Enables/Disables the SurfacePaint Paint Can function.
`void`	`findPickedObject(java.awt.event.MouseEvent kEvent)`	One of the overrides necessary to be a MouseListener.
`void`	`generateNewTextureCoords(ModelImage kImage, boolean bVertexColors, boolean bUseImageMask)`	Generates new texture coordinates for all surfaces, based on the new ModelImage texture-source.
`private void`	`getColorChange(java.awt.Color color)`	This is called when the user chooses a new color for the surface.
`javax.media.j3d.BranchGroup`	`getGeodesicGroup()`	Return access to the Group data member m_kGeodesicGroup so Geodesic object can draw on the triangle mesh.
`javax.vecmath.Color3f`	`getLightColor(int i)`	The only caller of this method is the light attribute dialog, an object from class JDialogSurfaceLight.
`int`	`getLightCount()`	The number of lights supported by the viewer (currently 9).
`JPanelLights`	`getLightDialog()`	Return the surface light control dialog box.
`javax.swing.JPanel`	`getMainPanel()`	Return the main surface panel.
`static javax.vecmath.Color4f`	`getNewSurfaceColor(int index)`	static function returns the next default surface color, based on the current number of surfaces displayed.
`javax.swing.JSlider`	`getOpacitySlider()`	Get the current surface opacity slider.
`com.sun.j3d.utils.picking.PickCanvas`	`getPickCanvas()`	Get the pick canvas.
`private SurfaceAttributes[]`	`getSelectedSurfaces(int[] aiSelected)`	Returns an array of SurfaceAttributes based on which surfaces are selected by the user in the surfaceList combo-box.
`javax.swing.JCheckBox`	`getSurfaceClipCB()`	Get the surface clip check box.
`javax.swing.JList`	`getSurfaceList()`	Get the reference to the surface list.
`SurfaceMask`	`getSurfaceMask()`	Returns the SurfaceMask object.
`int`	`getSurfaceOpacity()`	Get the current surface opacity value.
`java.util.Vector<SurfaceAttributes>`	`getSurfaceVector()`	Return the surface vector reference.
`ModelImage`	`getTextureImage()`	Returns the ModelImage used to generate the Texture3D.
`int`	`getTextureStatus()`	Returns the texture status, either TEXTURE, VERTEX_COLOR, or NONE.
`private void`	`init()`	Initializes the GUI components.
`private void`	`initSphere()`	Initialize the sphere scene graph objects for the sphere showing where the user clicked in the surface.
`boolean`	`isProbePicked()`	If probe being picked or not.
`private boolean`	`isStaticLightEnabled()`	Check static light is enable or not.
`private boolean`	`isStaticPicked()`	Indicates whether the static light bulb being picked by the mouse.
`boolean`	`isSurfacePickableSelected()`	Check if the surface pickable checkbox be selected or not.
`void`	`mouseClicked(java.awt.event.MouseEvent kEvent)`	One of the overrides necessary to be a MouseListener.
`void`	`mouseDragged(java.awt.event.MouseEvent kEvent)`	One of the overrides necessary to be a MouseMotionListener.
`void`	`mouseEntered(java.awt.event.MouseEvent kEvent)`	One of the overrides necessary to be a MouseListener.
`void`	`mouseExited(java.awt.event.MouseEvent kEvent)`	One of the overrides necessary to be a MouseListener.
`void`	`mouseMoved(java.awt.event.MouseEvent kEvent)`	One of the overrides necessary to be a MouseMotionListener.
`void`	`mousePressed(java.awt.event.MouseEvent kEvent)`	DOCUMENT ME!
`void`	`mouseReleased(java.awt.event.MouseEvent kEvent)`	DOCUMENT ME!
`private int`	`polygonIndexToMode(int index)`	Convert from the polygon mode combo-box list index to the PolygonAttributes.POLYGON_LINE, PolygonAttributes.POLYGON_POINT, and PolygonAttributes.POLYGON_FILL values:
`private void`	`readSurface(java.lang.String dir, java.io.File surfaceFile, float surfaceOpacity)`	Adding the surface with specific directory, file name, and surfaceOpacity.
`void`	`removeBranch(javax.media.j3d.BranchGroup kBranch, boolean bRemoveMesh)`	Removes a BranchGroup to the display.
`void`	`removeLineArray(javax.media.j3d.BranchGroup kBranch)`	Called from the JDialogDTIInput.
`void`	`removeSurface()`	Remove the surface from the volume render.
`void`	`removeSurface(javax.media.j3d.BranchGroup root)`	Remove the specified surface subtree from the scene graph.
`private void`	`removeSurfaces(SurfaceAttributes[] surfaces)`	The action taken when the Remove button is clicked in the list box.
`void`	`replaceMesh(ModelTriangleMesh kOld, ModelTriangleMesh kNew)`	ReplaceMesh is used by the Geodesic when a mesh is cut along either an open or closed geodesic curve, the original mesh is changed, but not deleted and no new mesh is added.
`void`	`resizePanel(int panelWidth, int frameHeight)`	Resizing the control panel with ViewJFrameVolumeView's frame width and height.
`void`	`restorePerVertexColor(javax.media.j3d.Material kMaterial, int index)`	Restores the per-vertex colors for the surface at the index parameter.
`void`	`restoreVertexColors()`	Restores the vertex colors for the surfaces.
`private void`	`setBackface(SurfaceAttributes[] surfaces)`	Turns BackFace Culling on/off for the selected surfaces.
`private void`	`setClipping(SurfaceAttributes[] surfaces)`	Turns Clipping on/off for the selected surfaces.
`private void`	`setElementsEnabled(boolean flag)`	Sets the surface options GUI panel to enabled or disabled.
`void`	`setLightAttributes(int iIndex)`	Update the properties of the specified light bulb.
`void`	`setLightBulbsVisible(boolean flag)`	Sets the light bulbs to visible or invisible.
`void`	`setMaterial(javax.media.j3d.Material kMaterial, int iIndex)`	Called from the JPanelSurfaceMAterialProperties.java dialog when the dialog is used to change the material properties of a surface.
`void`	`setPathPosition(javax.vecmath.Point3f kPosition)`	Updates the position of the flythru view point along the flythru path.
`private void`	`setPickable(SurfaceAttributes[] surfaces)`	Turns picking on/off for the selected surfaces.
`private void`	`setTransparency(SurfaceAttributes[] surfaces)`	Turns Transparency on/off for the selected surfaces.
`private void`	`setupLights(javax.media.j3d.TransformGroup surfaceRoot)`	Create and initialize the nine lights in the scene graph.
`private void`	`smoothSurface(SurfaceAttributes[] surfaces, int smoothType)`	Smoothes the selected surfaces.
`void`	`stateChanged(javax.swing.event.ChangeEvent event)`	The override necessary to be a ChangeListener for a JSlider.
`void`	`toggleWireframe()`	Toggle between wireframe and filled polygon mode.
`private void`	`updateSurfaceNameList(int[] selected)`	Called when surfaces are added or removed from the surfaceVector SurfaceAttributes list.
`private void`	`updateSurfaceRender(boolean bUpdateProbe)`	Updates the SurfaceRenderer.
`void`	`updateVolumeTexture(java.util.BitSet paintMask, javax.vecmath.Color4f kColor)`	Called from SurfacePaint.
`void`	`valueChanged(javax.swing.event.ListSelectionEvent kEvent)`	The override necessary to be a ListSelectionListener.
`void`	`windowClosing(java.awt.event.WindowEvent event)`	Overrides method in JDialogBase so dialog isn't disposed, just hidden.

Methods inherited from class gov.nih.mipav.view.renderer.J3D.JPanelRendererJ3D
disposeLocal, getSurfaceRender, setRayBasedRender, setSurfaceRender

Methods inherited from class gov.nih.mipav.view.renderer.JPanelRendererBase
buildApplyButton, buildCancelButton, buildCloseButton, buildHelpButton, buildOKButton, buildTitledBorder, finalize, focusGained, focusLost, isCancelled, itemStateChanged, keyPressed, keyReleased, keyTyped, makeString, setLeftHandSystem, setVisible, setVisibleStandard, setWCSystem, testParameter

Methods inherited from class javax.swing.JPanel
getAccessibleContext, getUI, getUIClassID, paramString, setUI, updateUI

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

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

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

Methods inherited from class java.lang.Object
clone, equals, getClass, hashCode, notify, notifyAll, wait, wait, wait

Methods inherited from interface java.awt.event.FocusListener
focusGained, focusLost

Methods inherited from interface java.awt.event.ItemListener
itemStateChanged

Methods inherited from interface java.awt.event.KeyListener
keyPressed, keyReleased, keyTyped

- Field Detail
  - serialVersionUID
```
private static final long serialVersionUID
```
    Use serialVersionUID for interoperability.
    
    See Also:
    
    Constant Field Values
  - fixedColor
```
private static javax.vecmath.Color3f[] fixedColor
```
    The colors for the surfaces.
  - activeLightBulbIndex
```
private int activeLightBulbIndex
```
    Record the current active index of light bulb, which is being picked.
  - areaLabel
```
private javax.swing.JLabel areaLabel
```
    The area label.
  - areaText
```
private javax.swing.JTextField areaText
```
    Displays the area of triangle.
  - colorButton
```
private javax.swing.JButton colorButton
```
    The color button, which calls a color chooser.
  - colorChooser
```
private ViewJColorChooser colorChooser
```
    Color chooser for when the user wants to change the color of the surface.
  - colorLabel
```
private javax.swing.JLabel colorLabel
```
    The color button label.
  - comboLabel
```
private javax.swing.JLabel comboLabel
```
    The polygon mode combo box label.
  - currentIndex
```
private int currentIndex
```
    Current surface index being highlighted.
  - decimateButton
```
private javax.swing.JButton decimateButton
```
    Decimate button.
  - detailLabel
```
private javax.swing.JLabel detailLabel
```
    The level of detail slider label.
  - detailSlider
```
private javax.swing.JSlider detailSlider
```
    Level of detail slider.
  - detailSliderLabels
```
private javax.swing.JLabel[] detailSliderLabels
```
    The labels below the detail slider.
  - findArbitraryClipping
```
private boolean findArbitraryClipping
```
    flag indicates arbitrary clpping bounding frame being picked.
  - findProbe
```
private boolean findProbe
```
    flag indicates the probe being picked.
  - levelSButton
```
private javax.swing.JButton levelSButton
```
    Save surface button.
  - levelVButton
```
private javax.swing.JButton levelVButton
```
    Save surface button.
  - levelWButton
```
private javax.swing.JButton levelWButton
```
    Save surface button.
  - levelXMLButton
```
private javax.swing.JButton levelXMLButton
```
    Save surface button.
  - lightArray
```
private javax.media.j3d.Light[] lightArray
```
    An array of eight lights that can be used for illuminating the surfaces in the scene. The lights at indices 0 and 7 are initially enabled; the other lights are initially disabled. The default positions for the lights are at the 8 corners of the cube [0,1]^3. Light 0 is at (0,0,0) and light 7 is at (1,1,1), thereby providing suitable lighting for the visible surfaces in the scene. Other lights can be enabled as desired through the light attribute dialog.
  - lightArrayBG
```
private javax.media.j3d.BranchGroup[] lightArrayBG
```
    The branch groups to which the lights are attached.
  - lightBulbs
```
private ViewJComponentLightBulbs lightBulbs
```
    The structure for the light bulbs.
  - m_aiMapIndexToJPanelLightsIndex
```
private final int[] m_aiMapIndexToJPanelLightsIndex
```
    The index of the lights in JPanelLights is different from the order maintained here. This array maps from our index to JPanelLights' index.
  - m_aiMapJPanelLightsIndexToIndex
```
private final int[] m_aiMapJPanelLightsIndexToIndex
```
    The index of the lights in JPanelLights is different from the order maintained here. This array maps from JPanelLights' index to our index.
  - m_akLights
```
private GeneralLight[] m_akLights
```
    The description of the lights so they can be duplicated in the "Advanced Material Properties" dialog:.
  - m_kAdvancedMaterialOptionsButton
```
private javax.swing.JButton m_kAdvancedMaterialOptionsButton
```
    The material options button, which launches the material editor window.
  - m_kGeodesicGroup
```
private javax.media.j3d.BranchGroup m_kGeodesicGroup
```
    For drawing the geodesic lines on the triangle mesh:.
  - m_kFiberTractGroup
```
javax.media.j3d.BranchGroup m_kFiberTractGroup
```
    For displaying the fiber bundle tracts in the orthogonal slice view:
  - m_kLightsControl
```
private JPanelLights m_kLightsControl
```
    Light dialog for when the user clicks the light button.
  - m_kPathPositionTG
```
private javax.media.j3d.TransformGroup m_kPathPositionTG
```
    For drawing the flythru path in the triangle mesh:.
  - m_kStereoButton
```
private javax.swing.JButton m_kStereoButton
```
    Stereo render button, launches the JStereoWindow for viewing the ModelTriangleMesh in stereo:.
  - m_kSurfaceTextureButton
```
private javax.swing.JButton m_kSurfaceTextureButton
```
    Opens SurfaceTexture dialog:.
  - maxBox
```
private float maxBox
```
    ModelImage max dimension: (Extents * resolutions).
  - resolutions
```
private float[] resolutions
```
  - extents
```
private int[] extents
```
  - mSurfaceMask
```
private SurfaceMask mSurfaceMask
```
    Surface mask.
  - mSurfacePaint
```
private SurfacePaint mSurfacePaint
```
    Paint interface/algorithm for allowing the user to interactively paint the vertices of the ModelTriangleMesh.
  - opacityLabel
```
private javax.swing.JLabel opacityLabel
```
    The opacity slider label.
  - opacitySlider
```
private javax.swing.JSlider opacitySlider
```
    Opacity slider, not enabled yet.
  - opacitySliderLabels
```
private javax.swing.JLabel[] opacitySliderLabels
```
    The labels below the opacity slider.
  - parentScene
```
private SurfaceRender parentScene
```
    The parent object that holds necessary the structures to which the surfaces will be added and modified.
  - pickCanvas
```
private com.sun.j3d.utils.picking.PickCanvas pickCanvas
```
    The PickCanvas object that ties together the canvas and the surfaces branch group to allow pick operations on the scene.
  - polygonModeCB
```
private javax.swing.JComboBox polygonModeCB
```
    The combo box for the polygon mode to display.
  - scroller
```
private javax.swing.JScrollPane scroller
```
    The scroll pane holding the panel content. Useful when the screen is small.
  - setSurfaceOpacityFlag
```
private boolean setSurfaceOpacityFlag
```
    Indicator for the opacity slider moves.
  - smooth1Button
```
private javax.swing.JButton smooth1Button
```
    Smooth button.
  - smooth2Button
```
private javax.swing.JButton smooth2Button
```
    Smooth button.
  - smooth3Button
```
private javax.swing.JButton smooth3Button
```
    Smooth button.
  - sphere
```
private com.sun.j3d.utils.geometry.Sphere sphere
```
    Sphere showing where the user clicked in the surface.
  - sphereBranch
```
private javax.media.j3d.BranchGroup sphereBranch
```
    Branch group parent of the sphere.
  - sphereShowing
```
private boolean sphereShowing
```
    Flag indicating if the sphere is currently showing.
  - sphereTransform
```
private javax.media.j3d.TransformGroup sphereTransform
```
    Transform group parent of the sphere.
  - staticLightBehaviorBG
```
private javax.media.j3d.BranchGroup staticLightBehaviorBG
```
    Static light hehavior branch group.
  - staticLightBG
```
private javax.media.j3d.BranchGroup staticLightBG
```
    The branch group that holds the static light bulb.
  - staticLightBulb
```
private ViewJComponentLightBulbs staticLightBulb
```
    The structure for the static light bulb.
  - staticLightTG
```
private javax.media.j3d.TransformGroup staticLightTG
```
    The transform group that holds the static light branch group.
  - staticLightTranslate
```
private com.sun.j3d.utils.behaviors.mouse.MouseTranslate staticLightTranslate
```
    Static light translate behavior.
  - staticLightZoom
```
private com.sun.j3d.utils.behaviors.mouse.MouseZoom staticLightZoom
```
    Static light zoom behavior.
  - surfaceBackFaceCB
```
private javax.swing.JCheckBox surfaceBackFaceCB
```
    Check Box for surface back face culling.
  - surfaceClipCB
```
private javax.swing.JCheckBox surfaceClipCB
```
    Check Box for surface clpping of the volume render.
  - surfaceDirectoryName
```
private java.lang.String surfaceDirectoryName
```
    The directory where a surface file was last loaded/saved. Defaults to MIPAV default directory.
  - surfaceList
```
private javax.swing.JList surfaceList
```
    The list box in the dialog for surfaces.
  - surfaceOpacityEvents
```
private MouseEventVector surfaceOpacityEvents
```
    Surface opacity changes event queue.
  - surfaceOpacitySlice
```
private int surfaceOpacitySlice
```
    Surface volume opacity.
  - surfacePickableCB
```
private javax.swing.JCheckBox surfacePickableCB
```
    Check Box for surface pickable.
  - surfaceRootBG
```
private javax.media.j3d.BranchGroup surfaceRootBG
```
    The branch group that holds all the surfaces together.
  - surfaceRootTG
```
private javax.media.j3d.TransformGroup surfaceRootTG
```
    The transform group to which the model lights are attached.
  - surfaceSliderCount
```
private int surfaceSliderCount
```
    Counter for surface opacity slider moves.
  - surfaceTransparencyCB
```
private javax.swing.JCheckBox surfaceTransparencyCB
```
    Check Box for surface transparency.
  - surfaceVector
```
private java.util.Vector<SurfaceAttributes> surfaceVector
```
    A list of the surfaces. The elements are of type SurfaceAttributes.
  - triangleLabel
```
private javax.swing.JLabel triangleLabel
```
    The number of triangles label.
  - triangleText
```
private javax.swing.JTextField triangleText
```
    Displays the number of triangles.
  - volumeLabel
```
private javax.swing.JLabel volumeLabel
```
    The volume label.
  - volumeText
```
private javax.swing.JTextField volumeText
```
    Displays the volume of triangle.
- Constructor Detail
  - JPanelSurface
```
public JPanelSurface(SurfaceRender parent,
                     javax.media.j3d.Canvas3D canvas,
                     javax.media.j3d.TransformGroup surfaceRoot,
                     float xBox,
                     float yBox,
                     float zBox)
```
    Creates the Java3D scene graph for the application. The surfaces are all children of the BranchGroup surfaceRootBG, which is in turn a child of the TransformGroup in ViewJFrameTriImage3D. That transform group controls how both the surfaces and the three image planes are displayed; by making the surfaces a child of the transform, the surfaces and image planes move together. The BranchGroup created here is used for the PickCanvas, so that the pick tool ignores the image planes when the mouse is clicked and just looks for the surfaces.
    This constructor also adds lights to the scene. Because of the texture maps on the image planes, lights don't make a difference in how the image planes are displayed. Therefore, the lights are only necessary for the surfaces.
    
    Parameters:
    
    parent - SurfaceRender reference
    
    canvas - Canvas3D reference
    
    surfaceRoot - TransformGroup root to add surfaces
    
    xBox - red box x dimension
    
    yBox - red box y dimension
    
    zBox - red box z dimension
- Method Detail
  - getNewSurfaceColor
```
public static javax.vecmath.Color4f getNewSurfaceColor(int index)
```
    static function returns the next default surface color, based on the current number of surfaces displayed. If the number of surfaces is less than the fixedColor.length then fixedColor is the source of the surface color, otherwise a random color is generated.
    
    Parameters:
    
    index - the number of the new surface
    
    Returns:
    
    Color4f, the default surface color for the new surface.
  - actionPerformed
```
public void actionPerformed(java.awt.event.ActionEvent event)
```
    The override necessary to be an ActionListener. This callback is executed whenever the Add or Remove buttons are clicked, or when the color button or light button is clicked, or when the combo box changes. If the Add button is clicked, a file dialog is launched to allow the user to select new surface meshes to load from disk. If the Remove button is clicked, the currently selected surfaces in the list box are removed from the scene graph.
    
    Specified by:
    
    actionPerformed in interface java.awt.event.ActionListener
    
    Specified by:
    
    actionPerformed in class JPanelRendererBase
    
    Parameters:
    
    event - The action event.
  - addAttachedSurfaces
```
public void addAttachedSurfaces()
```
    Add any attached surfaces the current image has in its file info (if the file info is in the xml format).
  - addBranch
```
public void addBranch(javax.media.j3d.BranchGroup kBranch,
                      ModelTriangleMesh kMesh,
                      javax.vecmath.Point3f kMeshCenter)
```
    Adds a BranchGroup to the display.
    
    Parameters:
    
    kBranch - BranchGroup branch group
    
    kMesh - ModelTriangleMesh surface mesh
    
    kMeshCenter - Point3f center of mass
  - addFlightPath
```
public void addFlightPath(javax.media.j3d.Shape3D kPathShape,
                          javax.vecmath.Point3f kPosition)
```
    Adds the flythru path shape and current view position to the display.
    
    Parameters:
    
    kPathShape - the flythru path geometry
    
    kPosition - the current viewpoint.
  - addLineArray
```
public javax.media.j3d.BranchGroup addLineArray(javax.media.j3d.LineArray kLine,
                                                int iGroup)
```
    Called from the JDialogDTIInput. Adds a line array representing the fiber bundle tract to the SurfaceRender.
    
    Parameters:
    
    kLine - LineArray to add
    
    iGroup - branch group index to add the line to.
    
    Returns:
    
    the BranchGroup the line is added to.
  - removeLineArray
```
public void removeLineArray(javax.media.j3d.BranchGroup kBranch)
```
    Called from the JDialogDTIInput. Removes the line array representing the fiber bundle tract from the SurfaceRender.
    
    Parameters:
    
    kBranch - the BranchGroup the line is in.
  - addMesh
```
public void addMesh(ModelTriangleMesh kOld,
                    ModelTriangleMesh kNew,
                    java.lang.String kName)
```
    Called when a mesh is changed by the Geodesic class, when a mesh is cut along the geodesic curve it may be divided into two or more meshes. This function allows the Geodesic class to add meshes to the scene renderer. It follows the pattern of adding a surface through the surface dialog.
    
    Parameters:
    
    kOld - ModelTriangleMesh old mesh
    
    kNew - ModelTriangleMesh new mesh
    
    kName - String mesh name
  - addSurface
```
public void addSurface()
```
    Add surface to the volume image. Calls the FileSurface.openSurfaces function to open a file dialog so the user can choose the surfaces to add.
  - addSurfaces
```
public void addSurfaces(java.lang.String dir,
                        java.io.File surfaceFile)
```
    Adding the surface with specific directory and file name. Called from the ViewJFrameVolumeView class from the JPanelEndoscopy loadingSurface function.
    
    Parameters:
    
    dir - directory name
    
    surfaceFile - file name
  - addSurfaces
```
public void addSurfaces(SurfaceAttributes[] surfaces,
                        boolean pickable)
```
    Adds an array of surfaces described by their SurfaceAttributes to the scene graph.
    
    Parameters:
    
    surfaces - the new surfaces (SurfaceAttributes[]) to add to the scene graph.
    
    pickable - when true turn picking on for the new surfaces, when false disable picking.
  - dispose
```
public void dispose()
```
    Dispose memory.
  - enableSurfacePaint
```
public void enableSurfacePaint(boolean bEnable)
```
    Enables/Disables the SurfacePaint per-vertex functions.
    
    Parameters:
    
    bEnable - when true the SurfacePaint per-vertex functions (PaintBrush, Dropper, Eraser, BrushSize) are enabled, when false they are disabled.
  - enableSurfacePaintCan
```
public void enableSurfacePaintCan(boolean bEnable)
```
    Enables/Disables the SurfacePaint Paint Can function.
    
    Parameters:
    
    bEnable - when true the Paint Can function is enabled, when false it is disabled.
  - findPickedObject
```
public void findPickedObject(java.awt.event.MouseEvent kEvent)
```
    One of the overrides necessary to be a MouseListener. The surface attribute dialog was added as a listener to the 3D canvas on which the scene is drawn. Whenever a picking operation occurs on the canvas, this member function is called. The pick operation returns the Shape3D object (null, if no object is situated at the pick location). The root of the subtree for the picked surface is looked up within the surfaces list. If found, the list box, color button, detail slider, triangle text, and polygon mode are updated to display the selected surface.
    
    Note. The use of Shape3D by the picker and BranchGroup by the surfaces list appears to be more complicated than necessary, and instead both should use Shape3D or BranchGroup. In fact it is necessary to structure the code as it currently is. The picker needs to locate actual geometry, so Shape3D objects must enable themselves to be picked with ray-triangle intersection testing. If the surfaces in the list were set up to be Shape3D instead of BranchGroup, then all add/remove operations would have to be based on Shape3D, not on BranchGroups. These operations are not allowed in compiled scene graphs.
    
    Note. The iteration over the surface list checking for the BranchGroup whose child is the picked surface is also necessary. Simpler would be to query the Shape3D object for its parent. Such a query is also not supported in a compiled scene graph.
    
    Parameters:
    
    kEvent - The mouse event.
  - generateNewTextureCoords
```
public void generateNewTextureCoords(ModelImage kImage,
                                     boolean bVertexColors,
                                     boolean bUseImageMask)
```
    Generates new texture coordinates for all surfaces, based on the new ModelImage texture-source. If bVertexColors is true, the ModelImage is displayed as per-vertex colors.
    
    Parameters:
    
    kImage - the new ModelImage used to texture-map the ModelTriangleMesh polygons.
    
    bVertexColors - when true display the ModelImage as per-vertex colors, when false, display the ModelImage as a 3D Texture.
    
    bUseImageMask - DOCUMENT ME!
  - getGeodesicGroup
```
public javax.media.j3d.BranchGroup getGeodesicGroup()
```
    Return access to the Group data member m_kGeodesicGroup so Geodesic object can draw on the triangle mesh.
    
    Returns:
    
    BranchGroup root of the geodesic group reference.
  - getLightColor
```
public javax.vecmath.Color3f getLightColor(int i)
```
    The only caller of this method is the light attribute dialog, an object from class JDialogSurfaceLight. The dialog calls this to initialize its color button.
    
    Parameters:
    
    i - The light index (must be in [0..8]).
    
    Returns:
    
    The color of light i.
  - getLightCount
```
public int getLightCount()
```
    The number of lights supported by the viewer (currently 9). The only caller of this method is the light attribute dialog, an object from class JDialogSurfaceLight. The dialog uses the count to create a list of lights in the scene. If the number of supported lights ever changes, the dialog code does not have to change.
    
    Returns:
    
    The number of supported lights in the scene.
  - getLightDialog
```
public JPanelLights getLightDialog()
```
    Return the surface light control dialog box.
    
    Returns:
    
    lights Surface light dialog box
  - getMainPanel
```
public javax.swing.JPanel getMainPanel()
```
    Return the main surface panel.
    
    Specified by:
    
    getMainPanel in class JPanelRendererBase
    
    Returns:
    
    the surface panel
  - getOpacitySlider
```
public javax.swing.JSlider getOpacitySlider()
```
    Get the current surface opacity slider.
    
    Returns:
    
    opacitySlider Surface opacity slider
  - getPickCanvas
```
public com.sun.j3d.utils.picking.PickCanvas getPickCanvas()
```
    Get the pick canvas.
    
    Returns:
    
    pickCanvas pick canvas.
  - getSurfaceClipCB
```
public javax.swing.JCheckBox getSurfaceClipCB()
```
    Get the surface clip check box.
    
    Returns:
    
    surfaceClipCB surface clip check box.
  - getSurfaceList
```
public javax.swing.JList getSurfaceList()
```
    Get the reference to the surface list. This method is called by the probePanel.
    
    Returns:
    
    surfaceList reference to surfaceList
  - getSurfaceMask
```
public SurfaceMask getSurfaceMask()
```
    Returns the SurfaceMask object.
    
    Returns:
    
    mSurfaceMask.
  - getSurfaceOpacity
```
public int getSurfaceOpacity()
```
    Get the current surface opacity value.
    
    Returns:
    
    surfaceOpaictySlice Surface opacity slider value
  - getSurfaceVector
```
public java.util.Vector<SurfaceAttributes> getSurfaceVector()
```
    Return the surface vector reference.
    
    Returns:
    
    surfaceVector surface vector
  - getTextureImage
```
public ModelImage getTextureImage()
```
    Returns the ModelImage used to generate the Texture3D.
    
    Returns:
    
    the JPanelSurfaceTexture ModelImage data source for the Texture3D object.
  - getTextureStatus
```
public int getTextureStatus()
```
    Returns the texture status, either TEXTURE, VERTEX_COLOR, or NONE.
    
    Returns:
    
    the texture status, either TEXTURE, VERTEX_COLOR, or NONE
  - isProbePicked
```
public boolean isProbePicked()
```
    If probe being picked or not.
    
    Returns:
    
    boolean probe picked or not
  - isSurfacePickableSelected
```
public boolean isSurfacePickableSelected()
```
    Check if the surface pickable checkbox be selected or not.
    
    Returns:
    
    isSelected Surface pickable check box selected or not.
  - mouseClicked
```
public void mouseClicked(java.awt.event.MouseEvent kEvent)
```
    One of the overrides necessary to be a MouseListener. This member only exists to satisfy the conditions of being a MouseListener. It does nothing when invoked.
    
    Specified by:
    
    mouseClicked in interface java.awt.event.MouseListener
    
    Parameters:
    
    kEvent - The mouse event.
  - mouseDragged
```
public void mouseDragged(java.awt.event.MouseEvent kEvent)
```
    One of the overrides necessary to be a MouseMotionListener. This member only exists to satisfy the conditions of being a MouseMotionListener. It does nothing when invoked.
    
    Specified by:
    
    mouseDragged in interface java.awt.event.MouseMotionListener
    
    Parameters:
    
    kEvent - The mouse event.
  - mouseEntered
```
public void mouseEntered(java.awt.event.MouseEvent kEvent)
```
    One of the overrides necessary to be a MouseListener. This member only exists to satisfy the conditions of being a MouseListener. It does nothing when invoked.
    
    Specified by:
    
    mouseEntered in interface java.awt.event.MouseListener
    
    Parameters:
    
    kEvent - The mouse event.
  - mouseExited
```
public void mouseExited(java.awt.event.MouseEvent kEvent)
```
    One of the overrides necessary to be a MouseListener. This member only exists to satisfy the conditions of being a MouseListener. It does nothing when invoked.
    
    Specified by:
    
    mouseExited in interface java.awt.event.MouseListener
    
    Parameters:
    
    kEvent - The mouse event.
  - mouseMoved
```
public void mouseMoved(java.awt.event.MouseEvent kEvent)
```
    One of the overrides necessary to be a MouseMotionListener. This member only exists to satisfy the conditions of being a MouseMotionListener. It does nothing when invoked.
    
    Specified by:
    
    mouseMoved in interface java.awt.event.MouseMotionListener
    
    Parameters:
    
    kEvent - The mouse event.
  - mousePressed
```
public void mousePressed(java.awt.event.MouseEvent kEvent)
```
    DOCUMENT ME!
    
    Specified by:
    
    mousePressed in interface java.awt.event.MouseListener
    
    Parameters:
    
    kEvent - The mouse event.
  - mouseReleased
```
public void mouseReleased(java.awt.event.MouseEvent kEvent)
```
    DOCUMENT ME!
    
    Specified by:
    
    mouseReleased in interface java.awt.event.MouseListener
    
    Parameters:
    
    kEvent - The mouse event.
  - removeBranch
```
public void removeBranch(javax.media.j3d.BranchGroup kBranch,
                         boolean bRemoveMesh)
```
    Removes a BranchGroup to the display.
    
    Parameters:
    
    kBranch - BranchGroup surface branch group reference.
    
    bRemoveMesh - boolean flag to remove the surface mesh or not
  - removeSurface
```
public void removeSurface()
```
    Remove the surface from the volume render.
  - removeSurface
```
public void removeSurface(javax.media.j3d.BranchGroup root)
```
    Remove the specified surface subtree from the scene graph.
    
    Parameters:
    
    root - The root of the subtree to remove.
  - replaceMesh
```
public void replaceMesh(ModelTriangleMesh kOld,
                        ModelTriangleMesh kNew)
```
    ReplaceMesh is used by the Geodesic when a mesh is cut along either an open or closed geodesic curve, the original mesh is changed, but not deleted and no new mesh is added. The orginal mesh, kOld, is replced by the new mesh, kNew
    
    Parameters:
    
    kOld - ModelTriangleMesh old mesh reference
    
    kNew - ModelTriangleMesh new mesh reference
  - resizePanel
```
public void resizePanel(int panelWidth,
                        int frameHeight)
```
    Resizing the control panel with ViewJFrameVolumeView's frame width and height.
    
    Overrides:
    
    resizePanel in class JPanelRendererBase
    
    Parameters:
    
    panelWidth - int width
    
    frameHeight - int height
  - restorePerVertexColor
```
public void restorePerVertexColor(javax.media.j3d.Material kMaterial,
                                  int index)
```
    Restores the per-vertex colors for the surface at the index parameter. Called by the AdvancedMaterialProperties dialog.
    
    Parameters:
    
    kMaterial - the original Material to restore
    
    index - the surface index
  - restoreVertexColors
```
public void restoreVertexColors()
```
    Restores the vertex colors for the surfaces.
  - setLightAttributes
```
public void setLightAttributes(int iIndex)
```
    Update the properties of the specified light bulb.
    
    Parameters:
    
    iIndex - int Index of the bulb in the array as stored in JPanelLights.
  - setLightBulbsVisible
```
public void setLightBulbsVisible(boolean flag)
```
    Sets the light bulbs to visible or invisible.
    
    Parameters:
    
    flag - true means visible.
  - setMaterial
```
public void setMaterial(javax.media.j3d.Material kMaterial,
                        int iIndex)
```
    Called from the JPanelSurfaceMAterialProperties.java dialog when the dialog is used to change the material properties of a surface. The surface is determined by the index iIndex. The color button is set to the Material diffuse color.
    
    Parameters:
    
    kMaterial - Material reference
    
    iIndex - int material index
  - setPathPosition
```
public void setPathPosition(javax.vecmath.Point3f kPosition)
```
    Updates the position of the flythru view point along the flythru path.
    
    Parameters:
    
    kPosition - Point3f
  - stateChanged
```
public void stateChanged(javax.swing.event.ChangeEvent event)
```
    The override necessary to be a ChangeListener for a JSlider.
    When a change occurs to the detailSlider, the user has requested that the level of detail be changed for the currently active surface. The slider range is [0,100] and is treated as a percent of maximum level of detail. A change has no effect on ModelTriangleMesh objects, but it does change the level of detail for an ModelClodMesh object. The number of triangles is also updated.
    
    When a change occurs to the opacity slider, the surface transparency is updated.
    
    Specified by:
    
    stateChanged in interface javax.swing.event.ChangeListener
    
    Parameters:
    
    event - The change event.
  - toggleWireframe
```
public void toggleWireframe()
```
    Toggle between wireframe and filled polygon mode.
  - updateVolumeTexture
```
public void updateVolumeTexture(java.util.BitSet paintMask,
                                javax.vecmath.Color4f kColor)
```
    Called from SurfacePaint. Used to paint the ModelImage texture with the paint can function.
    
    Parameters:
    
    paintMask - the paint mask to add to the texture.
    
    kColor - DOCUMENT ME!
  - valueChanged
```
public void valueChanged(javax.swing.event.ListSelectionEvent kEvent)
```
    The override necessary to be a ListSelectionListener. This callback is executed whenever the user selects a new item (or items) in the list box. If a single item is selected, then the selection index is remembered in iSelect and the interface items are initialized with the appropriate values corresponding to the selected surface. If multiple items are selected, then the selection index is -1 and the color button is set to the background color. The slider and polygon mode are set to the values found in the minimum selected surface.
    
    Specified by:
    
    valueChanged in interface javax.swing.event.ListSelectionListener
    
    Parameters:
    
    kEvent - The list selection event.
  - windowClosing
```
public void windowClosing(java.awt.event.WindowEvent event)
```
    Overrides method in JDialogBase so dialog isn't disposed, just hidden.
    
    Parameters:
    
    event - Event that triggered this method.
  - buildToolBar
```
private void buildToolBar()
```
    Build the toolbar.
  - changePolyMode
```
private void changePolyMode(int mode)
```
    Changes the polygon mode of the selected surface by detaching it, calling the appropriate method, and reattaching it.
    
    Parameters:
    
    mode - The new polygon mode to set.
  - containsMesh
```
private SurfaceAttributes[] containsMesh(ModelTriangleMesh kOld)
```
    containsMesh returns the SurfaceAttributes[] containing the input ModelTriangleMesh parameter, where the SurfaceAttributes[] array is of length 1. If the input mesh is not in the scene graph, then null is returned.
    
    Parameters:
    
    kOld - the ModelTriangleMesh that is being searched for in the scene graph
    
    Returns:
    
    SurfaceAttributes[1], an array of 1 containing the SurfaceAttributes describing the input mesh, null if the mesh is not found.
  - createLabel
```
private javax.swing.JLabel createLabel(java.lang.String title)
```
    Creates a label in the proper font and color.
    
    Parameters:
    
    title - The title of the label.
    
    Returns:
    
    The new label.
  - createSurface
```
private void createSurface(SurfaceAttributes surface,
                           boolean pickable)
```
    Creates a surface in the scene graph from an array of triangle meshes.
    
    Parameters:
    
    surface - Triangle meshes that make up surface
    
    pickable - Color of surface
  - decimate
```
private void decimate(SurfaceAttributes[] surfaces)
```
    Decimate the surface.
    
    Parameters:
    
    surfaces - DOCUMENT ME!
  - displayAdvancedMaterialOptions
```
private void displayAdvancedMaterialOptions(SurfaceAttributes[] surfaces)
```
    For each file in the selected list, launch the AdvancedMaterialOptions dialog:
    
    Parameters:
    
    surfaces - the list of selected surfaces (SurfaceAttributes)
  - displayImageAsTexture
```
private void displayImageAsTexture(SurfaceAttributes[] surfaces)
```
    Displays the selected surfaces with the ModelImage as a 3D texture map on the surface triangle mesh.
    
    Parameters:
    
    surfaces - the list of selected surfaces (SurfaceAttributes)
  - displayStereo
```
private void displayStereo(SurfaceAttributes[] surfaces)
```
    For each file in the selected list, launch the stereo viewer:
    
    Parameters:
    
    surfaces - the list of selected surfaces (SurfaceAttributes)
  - doPick
```
private com.sun.j3d.utils.picking.PickResult doPick(java.awt.event.MouseEvent kEvent)
```
    Locate the surface that corresponds to a picking operation in the viewer window. This member is called via the mouse listener callback. If a surface is picked, the list box is updated to show that the surface is selected and the corresponding information is set for the color button, the detail slider, and the number of triangles.
    
    Parameters:
    
    kEvent - The mouse event generated by the picking operation.
    
    Returns:
    
    The picked surface, or null if no surface is located at the pick location.
  - enableStaticLightBehavior
```
private void enableStaticLightBehavior(boolean flag)
```
    Enable static light behavior.
    
    Parameters:
    
    flag - true enable and false disable.
  - getColorChange
```
private void getColorChange(java.awt.Color color)
```
    This is called when the user chooses a new color for the surface. It changes the color of the surface.
    
    Parameters:
    
    color - Color to change surface to.
  - getSelectedSurfaces
```
private SurfaceAttributes[] getSelectedSurfaces(int[] aiSelected)
```
    Returns an array of SurfaceAttributes based on which surfaces are selected by the user in the surfaceList combo-box. Only surfaces are selected, VOI points are ignored.
    
    Parameters:
    
    aiSelected - the list of selected indices in the surfaceList
    
    Returns:
    
    an array of SurfaceAttributes that contains the corresponding list of surfaces from the surfaceVector.
  - init
```
private void init()
```
    Initializes the GUI components.
  - initSphere
```
private void initSphere()
```
    Initialize the sphere scene graph objects for the sphere showing where the user clicked in the surface.
  - isStaticLightEnabled
```
private boolean isStaticLightEnabled()
```
    Check static light is enable or not.
    
    Returns:
    
    staticLightEnable true means enable, false means disable.
  - isStaticPicked
```
private boolean isStaticPicked()
```
    Indicates whether the static light bulb being picked by the mouse.
    
    Returns:
    
    whether the static light bulb is being picked
  - polygonIndexToMode
```
private int polygonIndexToMode(int index)
```
    Convert from the polygon mode combo-box list index to the PolygonAttributes.POLYGON_LINE, PolygonAttributes.POLYGON_POINT, and PolygonAttributes.POLYGON_FILL values:
    
    Parameters:
    
    index - the index of the selected polygon mode in the polygonModeCB combo box.
    
    Returns:
    
    the corresponding PolygonAttributes defined value.
  - readSurface
```
private void readSurface(java.lang.String dir,
                         java.io.File surfaceFile,
                         float surfaceOpacity)
```
    Adding the surface with specific directory, file name, and surfaceOpacity.
    
    Parameters:
    
    dir - directory name
    
    surfaceFile - file name
    
    surfaceOpacity - opacity
  - removeSurfaces
```
private void removeSurfaces(SurfaceAttributes[] surfaces)
```
    The action taken when the Remove button is clicked in the list box. All selected surfaces in the list box are removed from the scene graph.
    
    Parameters:
    
    surfaces - the selected surfaces (SurfaceAttributes[]) to be removed.
  - setBackface
```
private void setBackface(SurfaceAttributes[] surfaces)
```
    Turns BackFace Culling on/off for the selected surfaces.
    
    Parameters:
    
    surfaces - the list of selected surfaces (SurfaceAttributes)
  - setClipping
```
private void setClipping(SurfaceAttributes[] surfaces)
```
    Turns Clipping on/off for the selected surfaces.
    
    Parameters:
    
    surfaces - the list of selected surfaces (SurfaceAttributes)
  - setElementsEnabled
```
private void setElementsEnabled(boolean flag)
```
    Sets the surface options GUI panel to enabled or disabled. If there are 0 or multiple surfaces selected, all the options should be disabled.
    
    Parameters:
    
    flag - Enable or disable.
  - setPickable
```
private void setPickable(SurfaceAttributes[] surfaces)
```
    Turns picking on/off for the selected surfaces.
    
    Parameters:
    
    surfaces - the list of selected surfaces (SurfaceAttributes)
  - setTransparency
```
private void setTransparency(SurfaceAttributes[] surfaces)
```
    Turns Transparency on/off for the selected surfaces.
    
    Parameters:
    
    surfaces - the list of selected surfaces (SurfaceAttributes)
  - setupLights
```
private void setupLights(javax.media.j3d.TransformGroup surfaceRoot)
```
    Create and initialize the nine lights in the scene graph. The first eight lights are positioned at the eight vertices of the cube [-1,1]^3. Light 0 is at (-1,-1,-1) and light 7 is at (1,1,1), both enabled by default. The default color for all lights is white. The default intensity is 1. All surfaces in the scene are illuminated by all enabled lights. The ninth light is ambient light, light that seems to come from all directions.
    
    Parameters:
    
    surfaceRoot - Transform group to attach lights to.
  - smoothSurface
```
private void smoothSurface(SurfaceAttributes[] surfaces,
                           int smoothType)
```
    Smoothes the selected surfaces. One dialog per group of selected surfaces is displayed (not a different dialog per-serface).
    
    Parameters:
    
    surfaces - the list of selected surfaces (SurfaceAttributes)
    
    smoothType - the level of smoothing JDialogSmoothMesh.SMOOTH1, JDialogSmoothMesh.SMOOTH2, or JDialogSmoothMesh.SMOOTH3
  - updateSurfaceNameList
```
private void updateSurfaceNameList(int[] selected)
```
    Called when surfaces are added or removed from the surfaceVector SurfaceAttributes list. Updates the surfaceList combo-box displayed in the user-interface.
    
    Parameters:
    
    selected - array of names that are currently selected.
  - updateSurfaceRender
```
private void updateSurfaceRender(boolean bUpdateProbe)
```
    Updates the SurfaceRenderer.
    
    Parameters:
    
    bUpdateProbe - when true update the ProbeDialog.
  - calcVolume
```
public float calcVolume(ModelImage imageA,
                        ModelTriangleMesh[] kMesh)
```

Class JPanelSurface

Nested Class Summary

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

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

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

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

Field Summary

Fields inherited from class gov.nih.mipav.view.renderer.J3D.JPanelRendererJ3D

Fields inherited from class gov.nih.mipav.view.renderer.JPanelRendererBase

Fields inherited from class javax.swing.JComponent

Fields inherited from class java.awt.Component

Fields inherited from interface java.awt.image.ImageObserver

Constructor Summary

Method Summary

Methods inherited from class gov.nih.mipav.view.renderer.J3D.JPanelRendererJ3D

Methods inherited from class gov.nih.mipav.view.renderer.JPanelRendererBase

Methods inherited from class javax.swing.JPanel

Methods inherited from class javax.swing.JComponent

Methods inherited from class java.awt.Container

Methods inherited from class java.awt.Component

Methods inherited from class java.lang.Object

Methods inherited from interface java.awt.event.FocusListener

Methods inherited from interface java.awt.event.ItemListener

Methods inherited from interface java.awt.event.KeyListener

Field Detail

serialVersionUID

fixedColor

activeLightBulbIndex

areaLabel

areaText

colorButton

colorChooser

colorLabel

comboLabel

currentIndex

decimateButton

detailLabel

detailSlider

detailSliderLabels

findArbitraryClipping

findProbe

levelSButton

levelVButton

levelWButton

levelXMLButton

lightArray

lightArrayBG

lightBulbs

m_aiMapIndexToJPanelLightsIndex

m_aiMapJPanelLightsIndexToIndex

m_akLights

m_kAdvancedMaterialOptionsButton

m_kGeodesicGroup

m_kFiberTractGroup

m_kLightsControl

m_kPathPositionTG

m_kStereoButton

m_kSurfaceTextureButton

maxBox

resolutions

extents

mSurfaceMask

mSurfacePaint

opacityLabel

opacitySlider

opacitySliderLabels

parentScene

pickCanvas

polygonModeCB

scroller

setSurfaceOpacityFlag

smooth1Button

smooth2Button

smooth3Button

sphere

sphereBranch

sphereShowing

sphereTransform

staticLightBehaviorBG

staticLightBG