Field Detail

• doAnnotations

  private boolean doAnnotations

• doAutomaticLabels

  private boolean doAutomaticLabels

• mouseSelection3D

  private boolean mouseSelection3D

• VoxelSize

  public static float VoxelSize

• latticeModel

  private LatticeModel latticeModel

• defaultVoxelSize

  private javax.swing.JTextField defaultVoxelSize

• updateVoxelSize

  private javax.swing.JDialog updateVoxelSize

• movingPickedPoint

  private boolean movingPickedPoint

• isShiftSelected

  private boolean isShiftSelected

Constructor Detail

• VOILatticeManagerInterface

  public VOILatticeManagerInterface​(VOIManagerInterfaceListener kParent,
                                    ModelImage kImageA,
                                    ModelImage kImageB,
                                    int iNViews,
                                    boolean bGPU,
                                    javax.swing.ButtonGroup kVOIGroup)

  Creates a VOIManagerInterface object.

  Parameters:

  kParent - the parent frame, must be a VOIManagerInterfaceListener

  kImageA - imageA

  kImageB - imageB

  iNViews - number of views displayed in the parent.

  bGPU - set to true if this VOIManagerInterface is part of the GPU-based Volume Renderer.

  kVOIGroup - for ViewJFrameImage and ViewJFrameTriImage, so the VOI Toolbar can be part of a larger button group.

Method Detail

• actionPerformed

  public void actionPerformed​(java.awt.event.ActionEvent event)

  Specified by:

  actionPerformed in interface java.awt.event.ActionListener

  Overrides:

  actionPerformed in class VOIManagerInterface

• getAnnotationPrefix

  public java.lang.String getAnnotationPrefix()

• setAnnotationPrefix

  public void setAnnotationPrefix​(java.lang.String s)

• getCurrentIndex

  public int getCurrentIndex()

• colorAnnotations

  public void colorAnnotations​(boolean setColor)

• removeListeners

  public void removeListeners()

• addAnnotationListener

  public void addAnnotationListener​(AnnotationListener listener)

  Adds an annotation listener to the latticeModel.

  Parameters:

  listener -

• addCurveListener

  public void addCurveListener​(CurveListener listener)

• addLatticeListener

  public void addLatticeListener​(LatticeListener listener)

• editAnnotations

  public void editAnnotations​(boolean automaticLabels)

  Enable editing annotations in either 3D or 2D windows with the mouse.

  Parameters:

  automaticLabels - if true the labels are created with numbers only (no leading 'A' for annotation).

• isEditAnnotations

  public boolean isEditAnnotations()

• doAutomaticLabels

  public boolean doAutomaticLabels()

  Returns the automatic labels flag.

  Returns:

• editLattice

  public void editLattice()

• editClip

  public void editClip()

• openLattice

  public void openLattice​(java.lang.String directory,
                          java.lang.String fileName)

• saveLattice

  public void saveLattice​(java.lang.String directory,
                          java.lang.String fileName)

• openNeuriteCurves

  public void openNeuriteCurves​(java.lang.String dir)

• saveNeuriteCurves

  public void saveNeuriteCurves()

• setLattice

  public void setLattice​(VOIVector lattice)

• untwistTest

  public ModelImage[] untwistTest​(VolumeImage[] stack)

  Untwists the worm image quickly for the preview mode - without saving any images or statistics

  Returns:

  untwisted image.

• untwistAnnotations

  public ModelImage untwistAnnotations​(java.lang.String dir,
                                       ModelImage image)

• openAnnotations

  public void openAnnotations​(java.lang.String directory,
                              java.lang.String fileName)

• addAnnotations

  public void addAnnotations​(VOIVector annotations)

• setAnnotations

  public void setAnnotations​(VOIVector annotations)

• setAnnotations

  public void setAnnotations​(VOI annotations)

• add3DMarker

  public void add3DMarker​(VOI textVOI,
                          boolean automaticLabel,
                          boolean multiSelect)

• isShift

  public boolean isShift()

• add3DMarker

  public void add3DMarker​(VOI textVOI,
                          boolean automaticLabel,
                          boolean multiSelect,
                          boolean isShift)

• clear3DSelection

  public void clear3DSelection()

• flipLattice

  public void flipLattice()

• is3DSelectionEnabled

  public boolean is3DSelectionEnabled()

• select3DMarker

  public boolean select3DMarker​(WildMagic.LibFoundation.Mathematics.Vector3f startPt,
                                WildMagic.LibFoundation.Mathematics.Vector3f endPt,
                                WildMagic.LibFoundation.Mathematics.Vector3f pt,
                                boolean rightMouse,
                                boolean multiSelect,
                                boolean isShift)

• modify3DMarker

  public boolean modify3DMarker​(WildMagic.LibFoundation.Mathematics.Vector3f startPt,
                                WildMagic.LibFoundation.Mathematics.Vector3f endPt,
                                WildMagic.LibFoundation.Mathematics.Vector3f pt)

• deleteSelectedPoint

  public void deleteSelectedPoint()

• hasSelectedPoint

  public boolean hasSelectedPoint()

• getPickedAnnotation

  public java.util.Vector<VOIWormAnnotation> getPickedAnnotation()

• moveSelectedPoint

  public void moveSelectedPoint​(WildMagic.LibFoundation.Mathematics.Vector3f direction)

• updateSelectedPoint

  public void updateSelectedPoint​(java.awt.Color color)

• setImage

  public void setImage​(ModelImage imageA,
                       ModelImage imageB)

  Set the new imageA and imageB for creating VOIs.

  Parameters:

  imageA -

  imageB -

• setSharedDirectory

  public void setSharedDirectory​(java.lang.String dir)

• updateManager

  public void updateManager​(int index,
                            int orientation)

• initVOIManagers

  protected void initVOIManagers​(int iNViews)

  Overrides:

  initVOIManagers in class VOIManagerInterface

• redoVOIs

  protected void redoVOIs()

  Overrides:

  redoVOIs in class VOIManagerInterface

• undoVOIs

  protected void undoVOIs()

  Overrides:

  undoVOIs in class VOIManagerInterface

• deleteAnnotations

  public void deleteAnnotations()

• showModel

  public void showModel​(boolean display)

• isModelDisplayed

  public boolean isModelDisplayed()

• updateCrossSection

  public void updateCrossSection​(boolean useSpline,
                                 boolean ellipse,
                                 float percent)

• showLattice

  public void showLattice​(boolean display)

• showLatticeLabels

  public void showLatticeLabels​(boolean display)

• setLatticeClip

  public void setLatticeClip​(boolean clip,
                             int position)

• generateTriMesh

  public WildMagic.LibGraphics.SceneGraph.TriMesh generateTriMesh​(int stepsize)

• setPaddingFactor

  public void setPaddingFactor​(int padding)

• addSplineControlPts

  public void addSplineControlPts​(java.util.Vector<VOIWormAnnotation> controlPts)

• addAnnotation

  public void addAnnotation​(VOI textVOI,
                            boolean multiSelect)

  Add an annotation to the latticeModel.

  Parameters:

  textVOI - new annotation.

• addAnnotation

  public void addAnnotation​(VOI textVOI)

  Add an annotation to the latticeModel.

  Parameters:

  textVOI - new annotation.

• getAnnotations

  public VOI getAnnotations()

  Returns list of annotations from lattice model.

  Returns:

  latticeModel annotations.

• getAnnotationsStraight

  public VOI getAnnotationsStraight()

• getSplineCurves

  public java.util.Vector<java.lang.String> getSplineCurves()

• setCurveVisible

  public void setCurveVisible​(java.lang.String name,
                              boolean visible)

• setCurveName

  public void setCurveName​(java.lang.String oldName,
                           java.lang.String newName)

• setCurveSelected

  public void setCurveSelected​(java.lang.String name,
                               boolean selected)

• isCurveSelected

  public boolean isCurveSelected​(java.lang.String name)

• deleteSelectedCurve

  public void deleteSelectedCurve()

• getLatticePickedPoint

  public WildMagic.LibFoundation.Mathematics.Vector3f getLatticePickedPoint()

• getLattice

  public VOIVector getLattice()

• getLatticeCurveLength

  public int getLatticeCurveLength()

• getLatticeStraight

  public VOIVector getLatticeStraight()

• isPreview

  public boolean isPreview()

• setPreviewMode

  public void setPreviewMode​(boolean preview,
                             VOIVector lattice,
                             VOI annotations)

• retwistAnnotations

  public VOI retwistAnnotations​(VOIVector lattice)

• retwistLattice

  public VOIVector retwistLattice​(VOIVector lattice)

• addLeftRightMarker

  private void addLeftRightMarker​(VOI textVOI,
                                  boolean isShift)

• addVOI

  public void addVOI​(VOIBase kNew,
                     boolean bQuickLUT,
                     boolean bUpdate,
                     boolean isFinished)

  Description copied from class: VOIManagerInterface
  Add a new VOIBase. This function should only be called from VOIManager when a new VOIBase is created with the mouse.

  Overrides:

  addVOI in class VOIManagerInterface

  Parameters:

  kNew - the new VOIBase to add.

  bQuickLUT - true if this is a QuickLUT VOI.

  bUpdate - when true call updateDisplay() after the VOIBase is added

  isFinished - true if this VOIBase is complete, used for open contours.

• modifyLattice

  private boolean modifyLattice​(WildMagic.LibFoundation.Mathematics.Vector3f startPt,
                                WildMagic.LibFoundation.Mathematics.Vector3f endPt,
                                WildMagic.LibFoundation.Mathematics.Vector3f pt)

• selectLattice

  private boolean selectLattice​(WildMagic.LibFoundation.Mathematics.Vector3f startPt,
                                WildMagic.LibFoundation.Mathematics.Vector3f endPt,
                                WildMagic.LibFoundation.Mathematics.Vector3f pt,
                                boolean isShift)

• modifyAnnotations

  private boolean modifyAnnotations​(WildMagic.LibFoundation.Mathematics.Vector3f pt)

• selectAnnotations

  private boolean selectAnnotations​(WildMagic.LibFoundation.Mathematics.Vector3f startPt,
                                    WildMagic.LibFoundation.Mathematics.Vector3f endPt,
                                    WildMagic.LibFoundation.Mathematics.Vector3f pt,
                                    boolean rightMouse,
                                    boolean multiSelect)

• updateAnnotation

  public void updateAnnotation​(VOIText annotation)

• updateLattice

  public void updateLattice​(boolean isLeft,
                            VOIWormAnnotation text,
                            VOIWormAnnotation newText)

• setVoxelSize

  private void setVoxelSize()

• mouseReleased

  public void mouseReleased​(java.awt.event.MouseEvent e)

  Specified by:

  mouseReleased in interface java.awt.event.MouseListener

  Overrides:

  mouseReleased in class VOIManagerInterface

• keyPressed

  public void keyPressed​(java.awt.event.KeyEvent e)

• keyReleased

  public void keyReleased​(java.awt.event.KeyEvent e)

• findNearestAnnotation

  public static VOIBase findNearestAnnotation​(VOI annotations,
                                              WildMagic.LibFoundation.Mathematics.Vector3f startPt,
                                              WildMagic.LibFoundation.Mathematics.Vector3f endPt,
                                              WildMagic.LibFoundation.Mathematics.Vector3f pt)