java.lang.Object
- java.awt.Component
- - java.awt.Canvas
  - - javax.media.j3d.Canvas3D
    - - gov.nih.mipav.view.renderer.J3D.VolumeCanvas3D
      - gov.nih.mipav.view.renderer.J3D.RenderViewBase
        
        gov.nih.mipav.view.renderer.J3D.surfaceview.SurfaceRender
        
        gov.nih.mipav.view.renderer.J3D.surfaceview.flythruview.FlythruRender

All Implemented Interfaces:

com.sun.j3d.utils.behaviors.mouse.MouseBehaviorCallback, FlyThroughRenderInterface, FlyPathBehavior.Callback, ViewImageUpdateInterface, java.awt.event.ActionListener, java.awt.event.KeyListener, java.awt.event.MouseListener, java.awt.event.MouseMotionListener, java.awt.event.MouseWheelListener, java.awt.image.ImageObserver, java.awt.MenuContainer, java.beans.PropertyChangeListener, java.io.Serializable, java.util.EventListener, javax.accessibility.Accessible, javax.swing.event.ChangeListener
```
public class FlythruRender
extends SurfaceRender
implements FlyThroughRenderInterface, FlyPathBehavior.Callback, com.sun.j3d.utils.behaviors.mouse.MouseBehaviorCallback, java.awt.event.MouseListener, java.awt.event.MouseMotionListener, java.awt.event.MouseWheelListener
```
Virtual colonoscopy viewer. This class contains the static 'main' method to launch the application. This class is an Applet which means that it can be embedded in a browser or it can be attached to a MainFrame when executed as an application. The Applet contains a Canvas3D used for the 3D rendering of the colon surface data and for using the mouse and keyboard for maneuvering the view of the colon while moving through it.

See Also:

Serialized Form

Nested Class Summary

Nested Classes
Modifier and Type	Class	Description
`private class`	`FlythruRender.MouseRotateExt`	Extend the MouseRotate class so that we can override the processMouseEvent method to ignore any events which occur while the shift key is down.
`(package private) class`	`FlythruRender.MouseWheel`	Mouse middle button wheel roller event handler.
`(package private) class`	`FlythruRender.RightMouse`	RightMouse press event handler.
`(package private) class`	`FlythruRender.RightMouseDragged`	Right mouse button press down and drag event handler.
`static class`	`FlythruRender.SetupOptions`	DOCUMENT ME!

Nested classes/interfaces inherited from class gov.nih.mipav.view.renderer.J3D.RenderViewBase
RenderViewBase.Matrix

Nested classes/interfaces inherited from class java.awt.Canvas
java.awt.Canvas.AccessibleAWTCanvas

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
`(package private) short[]`	`buffer`	DOCUMENT ME!
`(package private) int`	`capScreenHeight`	DOCUMENT ME!
`(package private) int`	`capScreenWidth`	DOCUMENT ME!
`(package private) long`	`currEventTime`	Current mouse press event time stamp.
`(package private) java.lang.String`	`directory`	DOCUMENT ME!
`(package private) int[]`	`extents`	DOCUMENT ME!
`(package private) java.lang.String`	`fileType`	DOCUMENT ME!
`private int`	`imageCounter`	DOCUMENT ME!
`(package private) JpegImagesToMovie`	`imageToMovie`	DOCUMENT ME!
`private VolumeCanvas3D`	`kCanvas`	DOCUMENT ME!
`private ModelImage`	`kImage`	DOCUMENT ME!
`static int`	`lookdown`
`static int`	`lookleft`
`static int`	`lookright`
`static int`	`lookup`
`private int[]`	`m_aiBranchIndexUnvisitedMax`	DOCUMENT ME!
`private int[]`	`m_aiBranchIndexUnvisitedMin`	This is the range of path samples for each branch that are unvisited.
`private int[]`	`m_aiMeshConnectivity`	DOCUMENT ME!
`private int`	`m_iLastSelectedBranchIndex`	Keep track of the last branch that was selected (at a branch point).
`private FlyPathAnnotateList`	`m_kAnnotateList`	This is for the collection of annotation points.
`private javax.media.j3d.Group`	`m_kAnnotatePointGroup`	DOCUMENT ME!
`private javax.media.j3d.Shape3D`	`m_kBranchConnectShape`	DOCUMENT ME!
`private javax.media.j3d.Shape3D`	`m_kBranchPathShape`	This is the Java3D geometry for the path.
`private JPanelVirtualEndoscopySetup`	`m_kControlFrame`	This is the control frame which may need to be updated as the view changes.
`private FlyPathBehavior`	`m_kFlyPathBehavior`	Keep track of the FlyPathBehavior because it knows about the view from the path.
`private FlyPathGraphCurve`	`m_kFlyPathGraphCurve`	DOCUMENT ME!
`private FlyPathGraphSamples`	`m_kFlyPathGraphSamples`	This is the path extracted from the skeletonization.
`private javax.media.j3d.Group`	`m_kGeodesicGroup`	DOCUMENT ME!
`private ModelLUT`	`m_kMeanCurvaturesLUT`	DOCUMENT ME!
`private ModelTriangleMeshCurvatures`	`m_kMeshCurvatures`	DOCUMENT ME!
`private com.sun.j3d.utils.behaviors.mouse.MouseRotate`	`m_kMouseRotateBehavior`	DOCUMENT ME!
`private javax.vecmath.Color3f`	`m_kNormalColorPathUnvisited`	DOCUMENT ME!
`private javax.vecmath.Color3f`	`m_kNormalColorPathVisited`	These are the colors to use when rendering the normal/selected branch that is unvisited/visited.
`private FlythruRender.SetupOptions`	`m_kOptions`	These are the setup options passed to the constructor which we need to keep track of in case we need to use them outside the constructor.
`private com.sun.j3d.utils.picking.PickCanvas`	`m_kPickCanvas`	Used for picking.
`private javax.media.j3d.PointLight`	`m_kPointLight`	DOCUMENT ME!
`private javax.media.j3d.BranchGroup`	`m_kSceneRoot`	These are part of the scene and view.
`private javax.vecmath.Color3f`	`m_kSelectColorPathUnvisited`	DOCUMENT ME!
`private javax.vecmath.Color3f`	`m_kSelectColorPathVisited`	DOCUMENT ME!
`private Skeleton3D`	`m_kSkeleton`	This it skeletonization of the binary volume.
`private ModelTriangleMesh`	`m_kSurface`	This is the surface geometry and its properties.
`private ModelTriangleMeshCurveSegments`	`m_kSurfaceCurveSegments`	DOCUMENT ME!
`private javax.media.j3d.IndexedGeometryArray`	`m_kSurfaceGeometry`	DOCUMENT ME!
`private com.sun.j3d.utils.geometry.GeometryInfo`	`m_kSurfaceGeometryInfo`	This is the Java3D geometry for the surface.
`private ModelTriangleMesh`	`m_kSurfaceMesh`	DOCUMENT ME!
`private javax.media.j3d.Shape3D`	`m_kSurfaceShape`	DOCUMENT ME!
`private com.sun.j3d.utils.universe.SimpleUniverse`	`m_kUniverse`	The simple universe contains a single canvas, a viewing platform, and a scene graph.
`private ModelImage3DLayout`	`m_kVolumeLayout`	Describes the organization of the volume data in a linear array.
`(package private) MovieMaker`	`movieMake`	DOCUMENT ME!
`private ViewJFrameVolumeView`	`parentFrame`	DOCUMENT ME!
`(package private) int[]`	`pixels`	DOCUMENT ME!
`private boolean`	`pressed`	If any of the mouse move button pressed.
`(package private) long`	`prevEventTime`	Previous mouse press event time stamp.
`(package private) javax.swing.JProgressBar`	`rendererProgressBar`	A local reference to the volume renderer frame's progress bar.
`(package private) java.awt.Robot`	`robot`	DOCUMENT ME!
`private int`	`saveCounter`	DOCUMENT ME!
`private static long`	`serialVersionUID`	Use serialVersionUID for interoperability.
`private long`	`time`	Time to wait for the next mouse event.

Fields inherited from class gov.nih.mipav.view.renderer.J3D.surfaceview.SurfaceRender
ARTERIAL_SEG, BONE_SEG, ENTRY_POINT, isViewTextureAligned, rayBasedRender, TUMOR_SEG, VASCULATURE_SEG, VEINOUS_SEG

Fields inherited from class gov.nih.mipav.view.renderer.J3D.RenderViewBase
background, bounds, boxFrame, canvas, captureFrame, captureImage, config, displayMode, IMAGE_A, IMAGE_B, LUTa, LUTb, objBehaviorBG, objBoxFrameBG, objRootBG, rotationAngle, rotationAxis, rotationControlPanel, rotationTimes, rotationTotal, sceneRootTG, sliderEvents, transRotation, transRotationMatrix, triPlanarViewBG, universe, viewPanel

Fields inherited from class gov.nih.mipav.view.renderer.J3D.VolumeCanvas3D
m_dAccumulatedTime, m_dFrameRate, m_dLastTime, m_iAccumulatedFrameCount, m_iFrameCount, m_iMaxTimer, m_iTimer

Fields inherited from class javax.media.j3d.Canvas3D
FIELD_ALL, FIELD_LEFT, FIELD_RIGHT

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

Fields inherited from interface com.sun.j3d.utils.behaviors.mouse.MouseBehaviorCallback
ROTATE, TRANSLATE, ZOOM

Constructor Summary

Constructors
Constructor	Description
`FlythruRender(ModelImage _kImage, java.awt.GraphicsConfiguration _config, ViewJFrameVolumeView _parentFrame)`	View which renders virtual endoscopy fly through of a binarized volume.

Method Summary

All Methods Instance Methods Concrete Methods
Modifier and Type	Method	Description
`void`	`addMesh(ModelTriangleMesh kOld, ModelTriangleMesh kNew)`	ReplaceMesh is used by the Geodesic when a mesh is cut.
`void`	`autoRun()`	Causes the FlyPathBehavior to fly down the current path from start to finish and back again.
`private javax.media.j3d.LineArray`	`createBranchConnectGeometry(int iBranch)`	Get the geometry to be used for rendering the connection of the specified branch to its parent branch.
`private javax.media.j3d.LineStripArray`	`createBranchPathGeometry(int iBranch)`	Get the geometry to be used for rendering the path of the specified branch.
`private javax.media.j3d.LineStripArray`	`createBranchPathGeometryScaled(int iBranch)`	Get the geometry to be used for rendering the path of the specified branch.
`private void`	`createDirectory()`	Create flythru directory to save the captured images from AVI recorder.
`void`	`dispose()`	Override called when window is closed.
`javax.media.j3d.Shape3D`	`getBranchPathShape()`	For displaying the Path in the surface renderer:
`java.lang.Object`	`getBranchState()`
`javax.media.j3d.Canvas3D`	`getCanvas()`	Accessor for the canvas for this 3D object.
`int`	`getCounter()`
`javax.media.j3d.Group`	`getGeodesicGroup()`	Return access to the Group data member m_kGeodesicGroup so Geodesic object can draw on the triangle mesh:
`int`	`getHeight()`
`ModelImage`	`getImage()`
`ModelLUT`	`getMeanCurvaturesLUT()`	Access the pseudocolor mapping specified to use when rendering the computed mean curvatures values for the specified surface.
`float`	`getPathDist()`	DOCUMENT ME!
`com.sun.j3d.utils.picking.PickCanvas`	`getPickCanvas()`	Get the pick canvas.
`javax.vecmath.Point3f`	`getPositionScaled()`	Scaled coordinates for the current position along the path for viewing.
`javax.vecmath.Point3f`	`getSamplePosition()`	Return the interpolated sample coordinates in the volume of the current position along the path for viewing.
`ModelTriangleMesh`	`getSurface()`	Access the surface to be rendered when moving along the path.
`javax.swing.JPanel`	`getSurfaceControl()`	DOCUMENT ME!
`ModelTriangleMeshCurvatures`	`getSurfaceCurvatures()`	Access the computed curvatures for the specified triangle mesh surface.
`int`	`getWidth()`
`void`	`makeMove(java.lang.String cmd)`	Passes move command from the JPanelFlythruMove to the FlyPathBehavior class.
`void`	`mouseClicked(java.awt.event.MouseEvent kMouseEvent)`	Implement MouseInterface abstract method.
`void`	`mouseDragged(java.awt.event.MouseEvent event)`	The mouseDragged event is used when the right mouse button press down and dragged to adjust the camera viewing direction.
`void`	`mouseEntered(java.awt.event.MouseEvent kMouseEvent)`	Implement MouseInterface abstract method.
`void`	`mouseExited(java.awt.event.MouseEvent kMouseEvent)`	Implement MouseInterface abstract method.
`void`	`mouseMoved(java.awt.event.MouseEvent kMouseEvent)`
`void`	`mousePressed(java.awt.event.MouseEvent event)`	Implement MouseInterface abstract method.
`void`	`mouseReleased(java.awt.event.MouseEvent event)`	Implement MouseInterface abstract method.
`void`	`mouseWheelMoved(java.awt.event.MouseWheelEvent event)`	Mouse wheel event invoked from the middle mouse button roller.
`boolean`	`readImage()`	DOCUMENT ME!
`void`	`record(boolean bOn)`	Turn recording frames on/off.
`void`	`replaceMesh(ModelTriangleMesh kOld, ModelTriangleMesh kNew)`	ReplaceMesh is used by the Geodesic when a mesh is cut.
`void`	`resetCounter()`	DOCUMENT ME!
`void`	`resetRenderAnnotateList()`	DOCUMENT ME!
`protected void`	`resetRenderBranchConnect()`	Called any time a change has been made to a new branch so that the connection between the branch and its parent can be rendered.
`protected void`	`resetRenderBranchPath()`	Called any time the position along the current curve changes and the color of the curve needs to change to show what has been visited.
`protected void`	`resetRenderScene()`	Called any time the scene needs to be regenerated.
`protected void`	`resetRenderSurface()`	Called whenever any of the rendering properties of the surface are modified.
`protected void`	`resetRenderSurfaceColors()`	If the color LUT defined for mean curvature pseudocolor mapping is defined, then use it to reset the colors.
`protected void`	`resetRenderSurfaceConnectivity()`	Resets the portion of the surface to be rendered based on the current triangle connectivity information.
`void`	`setCurrentState(java.lang.Object _state)`	Set the current traversing branch.
`void`	`setMeanCurvaturesLUT(ModelLUT kMeanCurvaturesLUT)`	Use the specified pseudocolors to render the computed mean curvatures for the previously specified mesh surface.
`void`	`setRenderSurfaceColors(java.awt.Color _color)`	If the color LUT defined for mean curvature pseudocolor mapping is defined, then use it to reset the colors.
`void`	`setSurface(ModelTriangleMesh kSurface)`	Add the specified surface to the rendering.
`void`	`setupRender(ModelImage _kImage, FlythruRender.SetupOptions kOptions)`	Setup flythru renderer.
`void`	`setupRenderControl(JPanelVirtualEndoscopySetup _control)`	DOCUMENT ME!
`void`	`toggleWireframe()`	Toggle between wireframe and filled polygon mode:
`void`	`transformChanged(int iType, javax.media.j3d.Transform3D kTransform)`	MouseBehaviorCallback override.
`void`	`viewChanged(FlyPathBehavior kFlyPathBehavior, int iEvent)`	Implementation of the FlyPathBehavior.Callback interface.
`boolean`	`writeImage()`	Write the image from the rendering frame into the camera capture frame.

Methods inherited from class gov.nih.mipav.view.renderer.J3D.surfaceview.SurfaceRender
actionPerformed, addCubicControl, autoCapture, cleanMouseRecorder, close, configureVolumeFrame, cropClipVolume, detachVolRender, disableClipping, dispatchSavedEvent, disposeLocal, drawRFAPoint, enableEntryPoint, enableObjBehavior, getCameraControl, getClipDialog, getDisplayDialog, getDisplayMode3D, getGeodesicPanel, getImageA, getImageB, getMouseDialog, getMouseMode, getObjBoxSlice_BG, getObjPlane_BG, getOriginalScreenScale, getParentFrame, getProbeDialog, getResolutions, getSceneState, getSculptorPanel, getSegmentationImage, getSlicePanel, getSliceSpacingCoarse, getSliceSpacingFine, getSurfaceDialog, getSurfaceTexture, getSurfaceTexturePanel, getViewDialog, getVolOpacityPanel, getVolRenderBG, getVolRenderOG, getVolumeTexture, getVolumeTextureCopy, hideBoxFrame, invokeClipping, isVolViewMode, keyPressed, keyReleased, keyTyped, ModelToScreen, propertyChange, reConfigureVolumeFrame, removeBoxSlice, removeCubicControl, resetAxisX, resetAxisY, resetImage, rotateImage, saveCropVolume, setAlphaBlend, setCenter, setCompositeMode, setDisplayMode3D, setGUI, setLightingMode, setLUTa, setLUTb, setMaterialShininess, setMouseMode, setMouseRotateEnable, setParallelRotation, setProbeTG, setRayBasedRender, setRenderPerspective, setRGBTA, setRGBTB, setSegmentationImage, setSlice, setSliceColor, setSliceSpacingCoarse, setSliceSpacingFine, setTimeSlice, setViewTextureAligned, setVolumeDisplayMode, setVolView, showBoxFrame, showBoxSlice, stateChanged, switchToSliceView, switchToVolView, transformUpdate, undoCropVolume, update3DTriplanar, updateBoxSlicePos, updateBoxSlices, updateCubicTransform, updateCubicTransform, updateData, updateImageExtents, updateImageFromRotation, updateImages, updateImages, updateImages, updateLighting, updateOpacityOfOthrogPlanes, updateParent, updateProbe, updateProbePos, updateRaycastRender, updateShininess, updateTransform, updateVolume, useSliceSpacingCoarse, useSliceSpacingFine, whichTissue

Methods inherited from class gov.nih.mipav.view.renderer.J3D.RenderViewBase
calcImageNormals, createBoxFrame, disableCamera, disposeLocal, getBehaviorGroup, getBound, getBranchGroup, getNormals, getRGBTA, getRGBTB, getSceneRootTG, getSliderEvents, getTriPlanarViewBG, getUniverse, recordMouse, setBackgroundColor, setBoxColor, setRotationAngle, setRotationAxis, writeImageAuto

Methods inherited from class gov.nih.mipav.view.renderer.J3D.VolumeCanvas3D
GetTestFrameRate, MeasureTime, paint, postSwap, ResetTime, SetTestFrameRate, supportsTexture3D, update, UpdateFrameCount

Methods inherited from class javax.media.j3d.Canvas3D
addNotify, getCenterEyeInImagePlate, getDoubleBufferAvailable, getDoubleBufferEnable, getGraphics2D, getGraphicsContext3D, getImagePlateToVworld, getInverseVworldProjection, getLeftEyeInImagePlate, getLeftManualEyeInImagePlate, getLocationOnScreen, getMonoscopicViewPolicy, getOffScreenBuffer, getOffScreenLocation, getOffScreenLocation, getPhysicalHeight, getPhysicalWidth, getPixelLocationFromImagePlate, getPixelLocationInImagePlate, getPixelLocationInImagePlate, getRightEyeInImagePlate, getRightManualEyeInImagePlate, getSceneAntialiasingAvailable, getScreen3D, getStereoAvailable, getStereoEnable, getView, getVworldProjection, getVworldToImagePlate, isOffScreen, isRendererRunning, isShadingLanguageSupported, postRender, preRender, queryProperties, removeNotify, renderField, renderOffScreenBuffer, setDoubleBufferEnable, setLeftManualEyeInImagePlate, setMonoscopicViewPolicy, setOffScreenBuffer, setOffScreenLocation, setOffScreenLocation, setRightManualEyeInImagePlate, setStereoEnable, startRenderer, stopRenderer, swap, waitForOffScreenRendering

Methods inherited from class java.awt.Canvas
createBufferStrategy, createBufferStrategy, getAccessibleContext, getBufferStrategy

Methods inherited from class java.awt.Component
action, add, addComponentListener, addFocusListener, addHierarchyBoundsListener, addHierarchyListener, addInputMethodListener, addKeyListener, addMouseListener, addMouseMotionListener, addMouseWheelListener, addPropertyChangeListener, addPropertyChangeListener, applyComponentOrientation, areFocusTraversalKeysSet, bounds, checkImage, checkImage, coalesceEvents, contains, contains, createImage, createImage, createVolatileImage, createVolatileImage, deliverEvent, disable, disableEvents, dispatchEvent, doLayout, enable, enable, enableEvents, enableInputMethods, firePropertyChange, firePropertyChange, firePropertyChange, firePropertyChange, firePropertyChange, firePropertyChange, firePropertyChange, firePropertyChange, firePropertyChange, getAlignmentX, getAlignmentY, getBackground, getBaseline, getBaselineResizeBehavior, getBounds, getBounds, getColorModel, getComponentAt, getComponentAt, getComponentListeners, getComponentOrientation, getCursor, getDropTarget, getFocusCycleRootAncestor, getFocusListeners, getFocusTraversalKeys, getFocusTraversalKeysEnabled, getFont, getFontMetrics, getForeground, getGraphics, getGraphicsConfiguration, getHierarchyBoundsListeners, getHierarchyListeners, getIgnoreRepaint, getInputContext, getInputMethodListeners, getInputMethodRequests, getKeyListeners, getListeners, getLocale, getLocation, getLocation, getMaximumSize, getMinimumSize, getMouseListeners, getMouseMotionListeners, getMousePosition, getMouseWheelListeners, getName, getParent, getPreferredSize, getPropertyChangeListeners, getPropertyChangeListeners, getSize, getSize, getToolkit, getTreeLock, getX, getY, gotFocus, handleEvent, hasFocus, hide, imageUpdate, inside, invalidate, isBackgroundSet, isCursorSet, isDisplayable, isDoubleBuffered, isEnabled, isFocusable, isFocusCycleRoot, isFocusOwner, isFocusTraversable, isFontSet, isForegroundSet, isLightweight, isMaximumSizeSet, isMinimumSizeSet, isOpaque, isPreferredSizeSet, isShowing, isValid, isVisible, keyDown, keyUp, layout, list, list, list, list, list, locate, location, lostFocus, minimumSize, mouseDown, mouseDrag, mouseEnter, mouseExit, mouseMove, mouseUp, move, nextFocus, paintAll, paramString, postEvent, preferredSize, prepareImage, prepareImage, print, printAll, processComponentEvent, processEvent, processFocusEvent, processHierarchyBoundsEvent, processHierarchyEvent, processInputMethodEvent, processKeyEvent, processMouseEvent, processMouseMotionEvent, processMouseWheelEvent, remove, removeComponentListener, removeFocusListener, removeHierarchyBoundsListener, removeHierarchyListener, removeInputMethodListener, removeKeyListener, removeMouseListener, removeMouseMotionListener, removeMouseWheelListener, removePropertyChangeListener, removePropertyChangeListener, repaint, repaint, repaint, repaint, requestFocus, requestFocus, requestFocus, requestFocus, requestFocusInWindow, requestFocusInWindow, requestFocusInWindow, reshape, resize, resize, revalidate, setBackground, setBounds, setBounds, setComponentOrientation, setCursor, setDropTarget, setEnabled, setFocusable, setFocusTraversalKeys, setFocusTraversalKeysEnabled, setFont, setForeground, setIgnoreRepaint, setLocale, setLocation, setLocation, setMaximumSize, setMinimumSize, setMixingCutoutShape, setName, setPreferredSize, setSize, setSize, setVisible, show, show, size, toString, transferFocus, transferFocusBackward, transferFocusUpCycle, validate

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

- Field Detail
  - serialVersionUID
```
private static final long serialVersionUID
```
    Use serialVersionUID for interoperability.
    
    See Also:
    
    Constant Field Values
  - buffer
```
short[] buffer
```
    DOCUMENT ME!
  - capScreenWidth
```
int capScreenWidth
```
    DOCUMENT ME!
  - capScreenHeight
```
int capScreenHeight
```
    DOCUMENT ME!
  - directory
```
java.lang.String directory
```
    DOCUMENT ME!
  - extents
```
int[] extents
```
    DOCUMENT ME!
  - fileType
```
java.lang.String fileType
```
    DOCUMENT ME!
  - imageToMovie
```
JpegImagesToMovie imageToMovie
```
    DOCUMENT ME!
  - movieMake
```
MovieMaker movieMake
```
    DOCUMENT ME!
  - pixels
```
int[] pixels
```
    DOCUMENT ME!
  - rendererProgressBar
```
javax.swing.JProgressBar rendererProgressBar
```
    A local reference to the volume renderer frame's progress bar.
  - robot
```
java.awt.Robot robot
```
    DOCUMENT ME!
  - imageCounter
```
private int imageCounter
```
    DOCUMENT ME!
  - kCanvas
```
private VolumeCanvas3D kCanvas
```
    DOCUMENT ME!
  - kImage
```
private ModelImage kImage
```
    DOCUMENT ME!
  - m_aiBranchIndexUnvisitedMax
```
private int[] m_aiBranchIndexUnvisitedMax
```
    DOCUMENT ME!
  - m_aiBranchIndexUnvisitedMin
```
private int[] m_aiBranchIndexUnvisitedMin
```
    This is the range of path samples for each branch that are unvisited.
  - m_aiMeshConnectivity
```
private int[] m_aiMeshConnectivity
```
    DOCUMENT ME!
  - m_iLastSelectedBranchIndex
```
private int m_iLastSelectedBranchIndex
```
    Keep track of the last branch that was selected (at a branch point).
  - m_kAnnotateList
```
private FlyPathAnnotateList m_kAnnotateList
```
    This is for the collection of annotation points.
  - m_kAnnotatePointGroup
```
private javax.media.j3d.Group m_kAnnotatePointGroup
```
    DOCUMENT ME!
  - m_kBranchConnectShape
```
private javax.media.j3d.Shape3D m_kBranchConnectShape
```
    DOCUMENT ME!
  - m_kBranchPathShape
```
private javax.media.j3d.Shape3D m_kBranchPathShape
```
    This is the Java3D geometry for the path.
  - m_kControlFrame
```
private JPanelVirtualEndoscopySetup m_kControlFrame
```
    This is the control frame which may need to be updated as the view changes.
  - m_kFlyPathBehavior
```
private FlyPathBehavior m_kFlyPathBehavior
```
    Keep track of the FlyPathBehavior because it knows about the view from the path.
  - m_kFlyPathGraphCurve
```
private FlyPathGraphCurve m_kFlyPathGraphCurve
```
    DOCUMENT ME!
  - m_kFlyPathGraphSamples
```
private FlyPathGraphSamples m_kFlyPathGraphSamples
```
    This is the path extracted from the skeletonization.
  - m_kGeodesicGroup
```
private javax.media.j3d.Group m_kGeodesicGroup
```
    DOCUMENT ME!
  - m_kMeanCurvaturesLUT
```
private ModelLUT m_kMeanCurvaturesLUT
```
    DOCUMENT ME!
  - m_kMeshCurvatures
```
private ModelTriangleMeshCurvatures m_kMeshCurvatures
```
    DOCUMENT ME!
  - m_kMouseRotateBehavior
```
private com.sun.j3d.utils.behaviors.mouse.MouseRotate m_kMouseRotateBehavior
```
    DOCUMENT ME!
  - m_kNormalColorPathUnvisited
```
private javax.vecmath.Color3f m_kNormalColorPathUnvisited
```
    DOCUMENT ME!
  - m_kNormalColorPathVisited
```
private javax.vecmath.Color3f m_kNormalColorPathVisited
```
    These are the colors to use when rendering the normal/selected branch that is unvisited/visited.
  - m_kOptions
```
private FlythruRender.SetupOptions m_kOptions
```
    These are the setup options passed to the constructor which we need to keep track of in case we need to use them outside the constructor.
  - m_kPickCanvas
```
private com.sun.j3d.utils.picking.PickCanvas m_kPickCanvas
```
    Used for picking.
  - m_kPointLight
```
private javax.media.j3d.PointLight m_kPointLight
```
    DOCUMENT ME!
  - m_kSceneRoot
```
private javax.media.j3d.BranchGroup m_kSceneRoot
```
    These are part of the scene and view.
  - m_kSelectColorPathUnvisited
```
private javax.vecmath.Color3f m_kSelectColorPathUnvisited
```
    DOCUMENT ME!
  - m_kSelectColorPathVisited
```
private javax.vecmath.Color3f m_kSelectColorPathVisited
```
    DOCUMENT ME!
  - m_kSkeleton
```
private Skeleton3D m_kSkeleton
```
    This it skeletonization of the binary volume.
  - m_kSurface
```
private ModelTriangleMesh m_kSurface
```
    This is the surface geometry and its properties.
  - m_kSurfaceCurveSegments
```
private ModelTriangleMeshCurveSegments m_kSurfaceCurveSegments
```
    DOCUMENT ME!
  - m_kSurfaceGeometry
```
private javax.media.j3d.IndexedGeometryArray m_kSurfaceGeometry
```
    DOCUMENT ME!
  - m_kSurfaceGeometryInfo
```
private com.sun.j3d.utils.geometry.GeometryInfo m_kSurfaceGeometryInfo
```
    This is the Java3D geometry for the surface.
  - m_kSurfaceMesh
```
private ModelTriangleMesh m_kSurfaceMesh
```
    DOCUMENT ME!
  - m_kSurfaceShape
```
private javax.media.j3d.Shape3D m_kSurfaceShape
```
    DOCUMENT ME!
  - m_kUniverse
```
private com.sun.j3d.utils.universe.SimpleUniverse m_kUniverse
```
    The simple universe contains a single canvas, a viewing platform, and a scene graph. The scene graph will contain all objects involved in the rendering.
  - m_kVolumeLayout
```
private ModelImage3DLayout m_kVolumeLayout
```
    Describes the organization of the volume data in a linear array.
  - parentFrame
```
private ViewJFrameVolumeView parentFrame
```
    DOCUMENT ME!
  - saveCounter
```
private int saveCounter
```
    DOCUMENT ME!
  - currEventTime
```
long currEventTime
```
    Current mouse press event time stamp.
  - prevEventTime
```
long prevEventTime
```
    Previous mouse press event time stamp.
  - pressed
```
private boolean pressed
```
    If any of the mouse move button pressed.
  - time
```
private long time
```
    Time to wait for the next mouse event.
  - lookup
```
public static int lookup
```
  - lookdown
```
public static int lookdown
```
  - lookright
```
public static int lookright
```
  - lookleft
```
public static int lookleft
```
- Constructor Detail
  - FlythruRender
```
public FlythruRender(ModelImage _kImage,
                     java.awt.GraphicsConfiguration _config,
                     ViewJFrameVolumeView _parentFrame)
```
    View which renders virtual endoscopy fly through of a binarized volume.
    
    Parameters:
    
    _kImage - ModelImage Contains the image data and its properties.
    
    _config - Graphics configuration reference.
    
    _parentFrame - ViewJFrameVolumeView reference. initial virtual endoscopy view.
- Method Detail
  - addMesh
```
public void addMesh(ModelTriangleMesh kOld,
                    ModelTriangleMesh kNew)
```
    ReplaceMesh is used by the Geodesic when a mesh is cut. 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 - DOCUMENT ME!
    
    kNew - DOCUMENT ME!
  - autoRun
```
public void autoRun()
```
    Description copied from interface: FlyThroughRenderInterface
    
    Causes the FlyPathBehavior to fly down the current path from start to finish and back again.
    
    Specified by:
    
    autoRun in interface FlyThroughRenderInterface
  - dispose
```
public void dispose()
```
    Override called when window is closed.
  - getBranchPathShape
```
public javax.media.j3d.Shape3D getBranchPathShape()
```
    For displaying the Path in the surface renderer:
    
    Returns:
    
    Shape3D, the scaled FlyPath
  - getBranchState
```
public java.lang.Object getBranchState()
```
    Specified by:
    
    getBranchState in interface FlyThroughRenderInterface
    
    Returns:
    
    the current BranchState from the FlyPatheBehavior class.
  - getCanvas
```
public javax.media.j3d.Canvas3D getCanvas()
```
    Description copied from class: RenderViewBase
    
    Accessor for the canvas for this 3D object.
    
    Specified by:
    
    getCanvas in interface FlyThroughRenderInterface
    
    Overrides:
    
    getCanvas in class RenderViewBase
    
    Returns:
    
    The canvas for the scene.
  - getGeodesicGroup
```
public javax.media.j3d.Group getGeodesicGroup()
```
    Return access to the Group data member m_kGeodesicGroup so Geodesic object can draw on the triangle mesh:
    
    Returns:
    
    DOCUMENT ME!
  - getMeanCurvaturesLUT
```
public ModelLUT getMeanCurvaturesLUT()
```
    Access the pseudocolor mapping specified to use when rendering the computed mean curvatures values for the specified surface.
    
    Returns:
    
    ModelLUT Defines the mapping of mean curvatures values to pseudocolor values.
  - getPathDist
```
public float getPathDist()
```
    DOCUMENT ME!
    
    Returns:
    
    DOCUMENT ME!
  - getPickCanvas
```
public com.sun.j3d.utils.picking.PickCanvas getPickCanvas()
```
    Get the pick canvas.
    
    Returns:
    
    pickCanvas pick canvas.
  - getPositionScaled
```
public javax.vecmath.Point3f getPositionScaled()
```
    Scaled coordinates for the current position along the path for viewing.
    
    Returns:
    
    Point3f A new instance created which contains the path position coordinates, scaled to match the ModelTriangleMesh in JPanelSurface.
  - getSamplePosition
```
public javax.vecmath.Point3f getSamplePosition()
```
    Return the interpolated sample coordinates in the volume of the current position along the path for viewing.
    
    Returns:
    
    Point3f A new instance created which contains the interpolated sample coordinates.
  - getSurface
```
public ModelTriangleMesh getSurface()
```
    Access the surface to be rendered when moving along the path.
    
    Returns:
    
    ModelTriangleMesh Instance of the surface represented as a triangle mesh as specified in the setSurface method.
  - getSurfaceControl
```
public javax.swing.JPanel getSurfaceControl()
```
    DOCUMENT ME!
    
    Returns:
    
    DOCUMENT ME!
  - getSurfaceCurvatures
```
public ModelTriangleMeshCurvatures getSurfaceCurvatures()
```
    Access the computed curvatures for the specified triangle mesh surface.
    
    Returns:
    
    ModelTriangleMeshCurvatures Instance of the computed curvatures associated with the triangle mesh specifed in the setSurface method.
  - makeMove
```
public void makeMove(java.lang.String cmd)
```
    Description copied from interface: FlyThroughRenderInterface
    
    Passes move command from the JPanelFlythruMove to the FlyPathBehavior class.
    
    Specified by:
    
    makeMove in interface FlyThroughRenderInterface
    
    Parameters:
    
    cmd - move command.
  - mouseClicked
```
public void mouseClicked(java.awt.event.MouseEvent kMouseEvent)
```
    Implement MouseInterface abstract method.
    
    Specified by:
    
    mouseClicked in interface java.awt.event.MouseListener
    
    Parameters:
    
    kMouseEvent - MouseEvent Contains information about the particular mouse event.
  - mouseEntered
```
public void mouseEntered(java.awt.event.MouseEvent kMouseEvent)
```
    Implement MouseInterface abstract method.
    
    Specified by:
    
    mouseEntered in interface java.awt.event.MouseListener
    
    Parameters:
    
    kMouseEvent - MouseEvent Contains information about the particular mouse event.
  - mouseExited
```
public void mouseExited(java.awt.event.MouseEvent kMouseEvent)
```
    Implement MouseInterface abstract method.
    
    Specified by:
    
    mouseExited in interface java.awt.event.MouseListener
    
    Parameters:
    
    kMouseEvent - MouseEvent Contains information about the particular mouse event.
  - mousePressed
```
public void mousePressed(java.awt.event.MouseEvent event)
```
    Implement MouseInterface abstract method.
    
    Specified by:
    
    mousePressed in interface java.awt.event.MouseListener
    
    Parameters:
    
    kMouseEvent - MouseEvent Contains information about the particular mouse event.
  - mouseDragged
```
public void mouseDragged(java.awt.event.MouseEvent event)
```
    The mouseDragged event is used when the right mouse button press down and dragged to adjust the camera viewing direction.
    
    Specified by:
    
    mouseDragged in interface java.awt.event.MouseMotionListener
    
    Parameters:
    
    event - MouseEvent right mouse button press down and drag
  - mouseMoved
```
public void mouseMoved(java.awt.event.MouseEvent kMouseEvent)
```
    Specified by:
    
    mouseMoved in interface java.awt.event.MouseMotionListener
  - mouseReleased
```
public void mouseReleased(java.awt.event.MouseEvent event)
```
    Implement MouseInterface abstract method.
    
    Specified by:
    
    mouseReleased in interface java.awt.event.MouseListener
    
    Parameters:
    
    kMouseEvent - MouseEvent Contains information about the particular mouse event.
  - mouseWheelMoved
```
public void mouseWheelMoved(java.awt.event.MouseWheelEvent event)
```
    Mouse wheel event invoked from the middle mouse button roller. Rolling forward to track the fly-thru path in forward direction. Rolling backward to track the fly-thru path in backward direction.
    
    Specified by:
    
    mouseWheelMoved in interface java.awt.event.MouseWheelListener
    
    Parameters:
    
    event - mouse middle mouse roller event.
  - readImage
```
public boolean readImage()
```
    DOCUMENT ME!
    
    Returns:
    
    DOCUMENT ME!
  - replaceMesh
```
public void replaceMesh(ModelTriangleMesh kOld,
                        ModelTriangleMesh kNew)
```
    ReplaceMesh is used by the Geodesic when a mesh is cut. 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 - DOCUMENT ME!
    
    kNew - DOCUMENT ME!
  - resetCounter
```
public void resetCounter()
```
    DOCUMENT ME!
  - resetRenderAnnotateList
```
public void resetRenderAnnotateList()
```
    DOCUMENT ME!
  - setCurrentState
```
public void setCurrentState(java.lang.Object _state)
```
    Set the current traversing branch.
    
    Specified by:
    
    setCurrentState in interface FlyThroughRenderInterface
    
    Parameters:
    
    _state - Object
  - setMeanCurvaturesLUT
```
public void setMeanCurvaturesLUT(ModelLUT kMeanCurvaturesLUT)
```
    Use the specified pseudocolors to render the computed mean curvatures for the previously specified mesh surface.
    
    Parameters:
    
    kMeanCurvaturesLUT - ModelLUT Defines the mapping of mean curvatures values to pseudocolor values. This may be null which is used to indicated that the mean curvatures are not to be rendered.
  - setRenderSurfaceColors
```
public void setRenderSurfaceColors(java.awt.Color _color)
```
    If the color LUT defined for mean curvature pseudocolor mapping is defined, then use it to reset the colors.
    
    Parameters:
    
    _color - DOCUMENT ME!
  - setSurface
```
public void setSurface(ModelTriangleMesh kSurface)
```
    Add the specified surface to the rendering.
    
    Parameters:
    
    kSurface - ModelTriangleMesh Surface represented as a triagle mesh.
  - setupRender
```
public void setupRender(ModelImage _kImage,
                        FlythruRender.SetupOptions kOptions)
```
    Setup flythru renderer.
    
    Parameters:
    
    _kImage - original model image reference.
    
    kOptions - setup options reference.
  - setupRenderControl
```
public void setupRenderControl(JPanelVirtualEndoscopySetup _control)
```
    DOCUMENT ME!
    
    Parameters:
    
    _control - DOCUMENT ME!
  - toggleWireframe
```
public void toggleWireframe()
```
    Toggle between wireframe and filled polygon mode:
  - transformChanged
```
public void transformChanged(int iType,
                             javax.media.j3d.Transform3D kTransform)
```
    MouseBehaviorCallback override. This method is called whenever any MouseBehavior-derived class causes a change to the transformation which it is controlling.
    
    Specified by:
    
    transformChanged in interface com.sun.j3d.utils.behaviors.mouse.MouseBehaviorCallback
    
    Overrides:
    
    transformChanged in class SurfaceRender
    
    Parameters:
    
    iType - will be one of ROTATE, TRANSLATE or ZOOM
    
    kTransform - the updated Transform3D controlled by the MouseBehavior
  - viewChanged
```
public void viewChanged(FlyPathBehavior kFlyPathBehavior,
                        int iEvent)
```
    Implementation of the FlyPathBehavior.Callback interface.
    
    Specified by:
    
    viewChanged in interface FlyPathBehavior.Callback
    
    Parameters:
    
    kFlyPathBehavior - reference to the MjFlyPathBehavior for which the view changed.
    
    iEvent - Bitmask identifies the event(s) which caused the view to change. Bitmask created from OR of EVENT_* defintions.
  - writeImage
```
public boolean writeImage()
```
    Description copied from class: RenderViewBase
    
    Write the image from the rendering frame into the camera capture frame.
    
    Specified by:
    
    writeImage in interface FlyThroughRenderInterface
    
    Overrides:
    
    writeImage in class RenderViewBase
    
    Returns:
    
    succeed true means succeed, false means unsucceed.
  - getCounter
```
public int getCounter()
```
    Specified by:
    
    getCounter in interface FlyThroughRenderInterface
    
    Returns:
    
    the current frame counter.
  - getHeight
```
public int getHeight()
```
    Specified by:
    
    getHeight in interface FlyThroughRenderInterface
    
    Overrides:
    
    getHeight in class java.awt.Component
    
    Returns:
    
    the frame height.
  - getWidth
```
public int getWidth()
```
    Specified by:
    
    getWidth in interface FlyThroughRenderInterface
    
    Overrides:
    
    getWidth in class java.awt.Component
    
    Returns:
    
    the frame width.
  - resetRenderBranchConnect
```
protected void resetRenderBranchConnect()
```
    Called any time a change has been made to a new branch so that the connection between the branch and its parent can be rendered.
  - resetRenderBranchPath
```
protected void resetRenderBranchPath()
```
    Called any time the position along the current curve changes and the color of the curve needs to change to show what has been visited.
  - resetRenderScene
```
protected void resetRenderScene()
```
    Called any time the scene needs to be regenerated.
  - resetRenderSurface
```
protected void resetRenderSurface()
```
    Called whenever any of the rendering properties of the surface are modified.
  - resetRenderSurfaceColors
```
protected void resetRenderSurfaceColors()
```
    If the color LUT defined for mean curvature pseudocolor mapping is defined, then use it to reset the colors.
  - resetRenderSurfaceConnectivity
```
protected void resetRenderSurfaceConnectivity()
```
    Resets the portion of the surface to be rendered based on the current triangle connectivity information.
  - createBranchConnectGeometry
```
private javax.media.j3d.LineArray createBranchConnectGeometry(int iBranch)
```
    Get the geometry to be used for rendering the connection of the specified branch to its parent branch.
    
    Parameters:
    
    iBranch - Index which identifies the branch.
    
    Returns:
    
    LineArray instance that can be attached to a Shape3D node for rendering
  - createBranchPathGeometry
```
private javax.media.j3d.LineStripArray createBranchPathGeometry(int iBranch)
```
    Get the geometry to be used for rendering the path of the specified branch.
    
    Parameters:
    
    iBranch - Index which identifies the branch.
    
    Returns:
    
    LineStripArray instance that can be attached to a Shape3D node for rendering
  - createBranchPathGeometryScaled
```
private javax.media.j3d.LineStripArray createBranchPathGeometryScaled(int iBranch)
```
    Get the geometry to be used for rendering the path of the specified branch.
    
    Parameters:
    
    iBranch - Index which identifies the branch.
    
    Returns:
    
    LineStripArray instance that can be attached to a Shape3D node for rendering.
    The LineStripArray coordinates are scaled to match the ModelTriangleMesh in JPanelSurface.
  - createDirectory
```
private void createDirectory()
```
    Create flythru directory to save the captured images from AVI recorder.
  - record
```
public void record(boolean bOn)
```
    Description copied from interface: FlyThroughRenderInterface
    
    Turn recording frames on/off.
    
    Specified by:
    
    record in interface FlyThroughRenderInterface
  - getImage
```
public ModelImage getImage()
```
    Specified by:
    
    getImage in interface FlyThroughRenderInterface
    
    Returns:
    
    access to the ModelImage mask image used by the Fly-through renderer.

Class FlythruRender

Nested Class Summary

Nested classes/interfaces inherited from class gov.nih.mipav.view.renderer.J3D.RenderViewBase

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

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

Field Summary

Fields inherited from class gov.nih.mipav.view.renderer.J3D.surfaceview.SurfaceRender

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

Fields inherited from class gov.nih.mipav.view.renderer.J3D.VolumeCanvas3D

Fields inherited from class javax.media.j3d.Canvas3D

Fields inherited from class java.awt.Component

Fields inherited from interface java.awt.image.ImageObserver

Fields inherited from interface com.sun.j3d.utils.behaviors.mouse.MouseBehaviorCallback

Constructor Summary

Method Summary

Methods inherited from class gov.nih.mipav.view.renderer.J3D.surfaceview.SurfaceRender

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

Methods inherited from class gov.nih.mipav.view.renderer.J3D.VolumeCanvas3D

Methods inherited from class javax.media.j3d.Canvas3D

Methods inherited from class java.awt.Canvas

Methods inherited from class java.awt.Component

Methods inherited from class java.lang.Object

Field Detail

serialVersionUID

buffer

capScreenWidth

capScreenHeight

directory

extents

fileType

imageToMovie

movieMake

pixels

rendererProgressBar

robot

imageCounter

kCanvas

kImage

m_aiBranchIndexUnvisitedMax

m_aiBranchIndexUnvisitedMin

m_aiMeshConnectivity

m_iLastSelectedBranchIndex

m_kAnnotateList

m_kAnnotatePointGroup

m_kBranchConnectShape

m_kBranchPathShape

m_kControlFrame

m_kFlyPathBehavior

m_kFlyPathGraphCurve

m_kFlyPathGraphSamples

m_kGeodesicGroup

m_kMeanCurvaturesLUT

m_kMeshCurvatures

m_kMouseRotateBehavior

m_kNormalColorPathUnvisited

m_kNormalColorPathVisited

m_kOptions

m_kPickCanvas

m_kPointLight

m_kSceneRoot

m_kSelectColorPathUnvisited

m_kSelectColorPathVisited

m_kSkeleton

m_kSurface

m_kSurfaceCurveSegments

m_kSurfaceGeometry

m_kSurfaceGeometryInfo

m_kSurfaceMesh

m_kSurfaceShape

m_kUniverse

m_kVolumeLayout

parentFrame

saveCounter

currEventTime

prevEventTime

pressed

time

lookup

lookdown

lookright