Package gov.nih.mipav.view.renderer.WildMagic.ProstateFramework

Class JDialogAAMplusSVM

  • All Implemented Interfaces:
    AlgorithmInterface, DialogDefaultsInterface, java.awt.event.ActionListener, java.awt.event.FocusListener, java.awt.event.ItemListener, java.awt.event.WindowListener, java.awt.image.ImageObserver, java.awt.MenuContainer, java.io.Serializable, java.util.EventListener, javax.accessibility.Accessible, javax.swing.RootPaneContainer, javax.swing.WindowConstants
    public class JDialogAAMplusSVM
extends JDialogBase
implements AlgorithmInterface
    This class is the combined Atlas based AAM and SVM model to automatically segment the MRI prostate. Atlas based AAM model initializes the coarser level VOI contour, then atlas based SVM model refines the prostate boundary. With the new image ( target image ), the AAM model try different pose configurations ( scale, translation, rotation, etc ) to find the closest VOI contour. This contour is the initialization contour to the SVM model. The SVM model generate the non-prostate regions and prostate boundary binary mask images. By copying the initial contour to non-prostate and prostate boundary images, and Coherence Enhanced Diffusion (CED) image, a dynamic narrow band tracing algorithm stretches the initial contour toward the correct prostate boundary based on a voting mechanism from the three images.
    Author:
    Ruida Cheng
    See Also:
    Serialized Form

    • Nested Class Summary

      Nested Classes 
      Modifier and Type Class Description
      (package private) class  JDialogAAMplusSVM.ImageAttribute
      Image attribute for AAM model.
      (package private) class  JDialogAAMplusSVM.ImageModel
      Image model of AAM.
      (package private) class  JDialogAAMplusSVM.ImageModelSVM
      Image SVM model.
      (package private) class  JDialogAAMplusSVM.ModelString
      Model string struct.
      (package private) class  JDialogAAMplusSVM.Range
      Segmentation processing range
      (package private) class  JDialogAAMplusSVM.ShapeFactor
      Shape factor struct.
      (package private) class  JDialogAAMplusSVM.SliceSetString
      AAM model slice struct.

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

        javax.swing.JDialog.AccessibleJDialog

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

        java.awt.Dialog.AccessibleAWTDialog, java.awt.Dialog.ModalExclusionType, java.awt.Dialog.ModalityType

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

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

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

        java.awt.Container.AccessibleAWTContainer

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

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

    • Constructor Summary

      Constructors 
      Constructor Description
      JDialogAAMplusSVM​(java.awt.Frame theParentFrame)
      Constructor

    • Method Summary

      All Methods Static Methods Instance Methods Concrete Methods 
      Modifier and Type Method Description
      void AAMinitialization()
      Atlas based AAM segmentation.
      void actionPerformed​(java.awt.event.ActionEvent event)
      actionPerformed handler.
      void algorithmPerformed​(AlgorithmBase algorithm)
      Called after an algorithm this listener is registered to exits (maybe successfully, maybe not).
      static double atof​(java.lang.String s)  
      static int atoi​(java.lang.String s)  
      void boundaryFinding​(ModelImage nonProstateImage, ModelImage boundaryImage, ModelImage targetImageSlice, int sliceNumber)
      Dynamic narrow band tracing algorithm.
      void checkEndSlices()
      From the target 2D slice, compare it with end slices based atlas.
      void computeShapeDescriptor()
      Compute VOI shape descriptors.
      void createTargetDialog()
      First time, the dialog is invoked, the init() method is called to create the GUI.
      void cropImage()
      Crop image for SVM classification.
      ModelImage cropTargetImage()
      Crop target image for SVM classification.
      void disposeLocal()  
      void doSegmentation()
      Driver to do automatic prostate segmentation.
      void evaluateShapeDescriptor()
      Evaluate the AAM segmented VOIs with MIPAV VOI properties.
      private static void exit_input_error​(int line_num)  
      private static void exit_input_error​(int line_num, java.lang.Throwable cause)  
      private void findBestImageNMI​(int targetImageSliceNumber, int[] bestImageNumber, int[] bestSliceNumber)
      NMI searching between target image and AAM atlas.
      void fixErrorVOI()
      Fix the error VOIs from the Marked VOI vector.
      private java.util.Vector<java.util.Vector<java.lang.String>> getStatsData​(java.util.Vector<VOIStatisticalProperties> statsList, VOIVector VOIs, ModelImage img)
      Generate the VOI statistics data.
      void init()
      GUI panel initialization.
      void markErrorOne()
      Mark the error segmented VOIs.
      ModelImage maskDisplay​(int[] mask, int sliceNumber)
      Display binary mask images.
      void mergedClassifier()
      After apply the AAM segmentation.
      static void pause()
      Pauses the display until the user hits enter.
      private void processDir​(java.io.File dir, java.util.Vector<JDialogAAMplusSVM.ModelString> modelNameVector)
      Processing the AAM dir with AAM model string and pivot sample image name.
      private void processingData​(java.lang.String modelDir)
      Process AAM model directory.
      private void processingEndSliceData​(java.lang.String endSliceModelDir)
      Process the ending slice atlas directory.
      private void readEndingSlice()
      Read the end slices and update the segmentation processing range.
      private void readEndingSlicesDir()
      Read the ending slice index to guide the segmentation towards apex and base.
      void readImagesAndVOIs()
      Read target image
      private void readKeyImageDir()
      Read AAM model atlas.
      private void readModels()
      Read SVM model atlas.
      private void readSampleImages()
      Read the AAM model.
      private void readSVMModelDir()
      Read SVM model atlas.
      private void readTargetImage()
      Read target image.
      void readTargetImageFeature()
      We pre-processing target image with coherence enhance diffusion (CED) filter, then extract SVM features from it and save it to the corresponding target image directory.
      void smoothVOI30​(ModelImage maskImage, ModelImage resultImage)
      Smooth VOI with 30 points.
      private void svmSortModelStructure()
      sort SVM model with names.
      private void svmTraverseDir​(java.io.File dir)
      Processing SVM model atlas.
      void transformVOIAAM()
      BSpline to smooth the final segmented VOIs.
      private void traverse​(java.io.File dir)
      Recursively read AAM dir, and update the AAM model structure.
      void updateResultImage​(int sliceNumber, ModelImage targetImageSlice)
      After the target image with final segmented VOI.
      void updateTargetImage​(int sliceNumber, ModelImage targetImageSlice)
      Copy the 2D slice segmented VOI to target image silce.

      • Methods inherited from class javax.swing.JDialog

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

      • Methods inherited from class java.awt.Dialog

        addNotify, getModalityType, getTitle, hide, isModal, isResizable, isUndecorated, setBackground, setModal, setModalityType, setOpacity, setResizable, setShape, setTitle, setUndecorated, show, toBack

      • Methods inherited from class java.awt.Window

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

      • Methods inherited from class java.awt.Container

        add, add, add, add, add, addContainerListener, applyComponentOrientation, areFocusTraversalKeysSet, countComponents, deliverEvent, doLayout, findComponentAt, findComponentAt, getAlignmentX, getAlignmentY, getComponent, getComponentAt, getComponentAt, getComponentCount, getComponents, getComponentZOrder, getContainerListeners, getFocusTraversalPolicy, getInsets, getLayout, getMaximumSize, getMinimumSize, getMousePosition, getPreferredSize, insets, invalidate, isAncestorOf, isFocusCycleRoot, isFocusTraversalPolicyProvider, isFocusTraversalPolicySet, layout, list, list, locate, minimumSize, paintComponents, preferredSize, print, printComponents, processContainerEvent, remove, removeAll, removeContainerListener, setComponentZOrder, setFocusTraversalKeys, setFocusTraversalPolicy, setFocusTraversalPolicyProvider, setFont, transferFocusDownCycle, validate, validateTree

      • Methods inherited from class java.awt.Component

        action, add, addComponentListener, addFocusListener, addHierarchyBoundsListener, addHierarchyListener, addInputMethodListener, addKeyListener, addMouseListener, addMouseMotionListener, addMouseWheelListener, bounds, checkImage, checkImage, coalesceEvents, contains, contains, createImage, createImage, createVolatileImage, createVolatileImage, disable, disableEvents, dispatchEvent, enable, enable, enableEvents, enableInputMethods, firePropertyChange, firePropertyChange, firePropertyChange, firePropertyChange, firePropertyChange, firePropertyChange, firePropertyChange, firePropertyChange, firePropertyChange, getBaseline, getBaselineResizeBehavior, getBounds, getBounds, getColorModel, getComponentListeners, getComponentOrientation, getCursor, getDropTarget, getFocusListeners, getFocusTraversalKeysEnabled, getFont, getFontMetrics, getForeground, getGraphicsConfiguration, getHeight, getHierarchyBoundsListeners, getHierarchyListeners, getIgnoreRepaint, getInputMethodListeners, getInputMethodRequests, getKeyListeners, getLocation, getLocation, getLocationOnScreen, getMouseListeners, getMouseMotionListeners, getMousePosition, getMouseWheelListeners, getName, getParent, getPropertyChangeListeners, getPropertyChangeListeners, getSize, getSize, getTreeLock, getWidth, getX, getY, gotFocus, handleEvent, hasFocus, imageUpdate, inside, isBackgroundSet, isCursorSet, isDisplayable, isDoubleBuffered, isEnabled, isFocusable, isFocusOwner, isFocusTraversable, isFontSet, isForegroundSet, isLightweight, isMaximumSizeSet, isMinimumSizeSet, isPreferredSizeSet, isValid, isVisible, keyDown, keyUp, list, list, list, location, lostFocus, mouseDown, mouseDrag, mouseEnter, mouseExit, mouseMove, mouseUp, move, nextFocus, paintAll, prepareImage, prepareImage, printAll, processComponentEvent, processFocusEvent, processHierarchyBoundsEvent, processHierarchyEvent, processInputMethodEvent, processKeyEvent, processMouseEvent, processMouseMotionEvent, processMouseWheelEvent, remove, removeComponentListener, removeFocusListener, removeHierarchyBoundsListener, removeHierarchyListener, removeInputMethodListener, removeKeyListener, removeMouseListener, removeMouseMotionListener, removeMouseWheelListener, removePropertyChangeListener, removePropertyChangeListener, repaint, repaint, repaint, requestFocus, requestFocus, requestFocus, requestFocus, requestFocusInWindow, requestFocusInWindow, requestFocusInWindow, resize, resize, revalidate, setComponentOrientation, setDropTarget, setEnabled, setFocusable, setFocusTraversalKeysEnabled, setForeground, setIgnoreRepaint, setLocale, setMaximumSize, setMixingCutoutShape, setName, setPreferredSize, show, size, toString, transferFocus, transferFocusBackward, transferFocusUpCycle

      • Methods inherited from class java.lang.Object

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

    • Field Detail

      • featureArray

        private Features[] featureArray

      • featureArraySVM

        private FeaturesSVM[] featureArraySVM

      • model

        private C_AAMMODEL model
        AAM model reference.

      • labelModel

        private javax.swing.JLabel labelModel
        key image directory.

      • textFieldModel

        private javax.swing.JTextField textFieldModel

      • buttonModel

        private javax.swing.JButton buttonModel

      • labelImageTarget

        private javax.swing.JLabel labelImageTarget
        Target image directory.

      • textFieldImageTarget

        private javax.swing.JTextField textFieldImageTarget

      • buttonImageTarget

        private javax.swing.JButton buttonImageTarget

      • imageSelectionPanel

        private javax.swing.JPanel imageSelectionPanel
        image panel.

      • buttonPanel

        private javax.swing.JPanel buttonPanel

      • modelChooser

        private javax.swing.JFileChooser modelChooser
        key images variables.

      • modelDirectory

        private java.lang.String modelDirectory

      • targetImageChooser

        private javax.swing.JFileChooser targetImageChooser
        target image variables.

      • targetImageName

        private java.lang.String targetImageName

      • targetImageDirectory

        private java.lang.String targetImageDirectory

      • targetImage

        private ModelImage targetImage
        target image references.

      • cropTargetImage

        private ModelImage cropTargetImage

      • boxYmin

        private int boxYmin
        cropped image boundary info.

      • boxYmax

        private int boxYmax
        cropped image boundary info.

      • boxXmin

        private int boxXmin

      • boxXmax

        private int boxXmax

      • xBounds

        private int[] xBounds

      • yBounds

        private int[] yBounds

      • zBounds

        private int[] zBounds

      • axisList

        private javax.swing.JComboBox axisList
        axis panel.

      • labelAxis

        private javax.swing.JLabel labelAxis

      • Axial

        private static int Axial
        axis oritentation.

      • Saggital

        private static int Saggital

      • Coronal

        private static int Coronal

      • axis

        private int axis

      • groupRefImages

        private java.util.Hashtable<java.lang.Integer,​java.util.Vector<ModelImage>> groupRefImages

      • groupCropImages

        private java.util.Hashtable<java.lang.Integer,​java.util.Vector<ModelImage>> groupCropImages

      • svmModelChooser

        private javax.swing.JFileChooser svmModelChooser
        SVM model panel.

      • svmModelName

        private java.lang.String svmModelName

      • svmModelDirectory

        private java.lang.String svmModelDirectory

      • labelSVMModel

        private javax.swing.JLabel labelSVMModel

      • textFieldSVMModel

        private javax.swing.JTextField textFieldSVMModel

      • buttonSVMModel

        private javax.swing.JButton buttonSVMModel

      • modelStructure

        private java.util.Hashtable<java.lang.String,​java.util.Hashtable<java.lang.String,​JDialogAAMplusSVM.ImageAttribute>> modelStructure
        SVM model vector.

      • sortModelStructure

        private java.util.Hashtable<java.lang.Integer,​java.util.Hashtable<java.lang.String,​JDialogAAMplusSVM.ImageAttribute>> sortModelStructure
        SVM model vector after sorted by name.

      • models

        private java.util.Hashtable<java.lang.Integer,​java.util.Hashtable<java.lang.Integer,​JDialogAAMplusSVM.ImageModel>> models
        SVM model.

      • modelsSVM

        private java.util.Hashtable<java.lang.Integer,​java.util.Hashtable<java.lang.Integer,​JDialogAAMplusSVM.ImageModelSVM>> modelsSVM
        SVM model vector.

      • voiVectorNewFinal

        private VOIVector voiVectorNewFinal

      • voiNewFinal

        private VOI voiNewFinal

      • markedVOI

        private java.util.Hashtable<java.lang.Integer,​java.lang.Integer> markedVOI
        VOI vector to fix the wrong segmentation contour after AAM segmentation.

      • shapeDescriptor

        private java.util.Vector<JDialogAAMplusSVM.ShapeFactor> shapeDescriptor
        shape descriptor vector of VOI contours after AAM segmentation.

      • statData

        private java.util.Vector<java.util.Vector<java.lang.Float>> statData
        statistic data corresponding to marked VOI vector.

      • statsToCalculate

        private static final java.lang.String[] statsToCalculate
        MIPAV VOI properties parameters.

      • mainPanel

        private javax.swing.JPanel mainPanel

      • startSlice

        private int startSlice
        Current segmentation processing slice range, which is between silce 3 and 20. This constraint is imposed by the SVM training model. Due to the manual drawing the non-prostate regions for SVM training, the human guided training process is time consuming. Currently, we only train the SVM models from slice 3 to slice 20. Later, if we have time, we will apply to more slices.

      • endSlice

        private int endSlice

      • checkList

        private static final boolean[] checkList
        VOI properties check list.

      • endSliceImageNames

        private java.util.Vector<java.lang.String> endSliceImageNames
        Ending slice check references for apex and base.

      • endSliceRangeNames

        private java.util.Vector<java.lang.String> endSliceRangeNames

      • endSliceImages

        private java.util.Vector<ModelImage> endSliceImages

    • Constructor Detail

      • JDialogAAMplusSVM

        public JDialogAAMplusSVM​(java.awt.Frame theParentFrame)
        Constructor
        Parameters:
        theParentFrame - parent frame reference.

    • Method Detail

      • algorithmPerformed

        public void algorithmPerformed​(AlgorithmBase algorithm)
        Description copied from interface: AlgorithmInterface
        Called after an algorithm this listener is registered to exits (maybe successfully, maybe not). If the algorithm is run in a separate thread, this call will be made within that thread. If not, this call will be made from that same, shared thread.
        Specified by:
        algorithmPerformed in interface AlgorithmInterface
        Parameters:
        algorithm - the algorithm which has just completed

      • actionPerformed

        public void actionPerformed​(java.awt.event.ActionEvent event)
        actionPerformed handler.
        Specified by:
        actionPerformed in interface java.awt.event.ActionListener
        Overrides:
        actionPerformed in class JDialogBase

      • init

        public void init()
        GUI panel initialization.

      • createTargetDialog

        public void createTargetDialog()
        First time, the dialog is invoked, the init() method is called to create the GUI. Afterward, when the dialog is invoked again, this method is called, which save the Atlas AAM model and SVM model loading process.

      • doSegmentation

        public void doSegmentation()
        Driver to do automatic prostate segmentation.

      • checkEndSlices

        public void checkEndSlices()
        From the target 2D slice, compare it with end slices based atlas. Find the closed 2D slice image, and invoke the corresponding start and ending VOI index. This step is important, which eliminates the segmentation error toward apex and base to certain extents. There are still changes that apex and base ending index miss interpolated, resulting in the wrong segmentation. We need to improve this later.

      • evaluateShapeDescriptor

        public void evaluateShapeDescriptor()
        Evaluate the AAM segmented VOIs with MIPAV VOI properties.

      • getStatsData

        private java.util.Vector<java.util.Vector<java.lang.String>> getStatsData​(java.util.Vector<VOIStatisticalProperties> statsList,
                                                                          VOIVector VOIs,
                                                                          ModelImage img)
        Generate the VOI statistics data.
        Parameters:
        statsList -
        VOIs -
        img -
        Returns:

      • computeShapeDescriptor

        public void computeShapeDescriptor()
        Compute VOI shape descriptors.

      • markErrorOne

        public void markErrorOne()
        Mark the error segmented VOIs.

      • transformVOIAAM

        public void transformVOIAAM()
        BSpline to smooth the final segmented VOIs.

      • fixErrorVOI

        public void fixErrorVOI()
        Fix the error VOIs from the Marked VOI vector.

      • AAMinitialization

        public void AAMinitialization()
        Atlas based AAM segmentation.

      • cropImage

        public void cropImage()
        Crop image for SVM classification.

      • readTargetImageFeature

        public void readTargetImageFeature()
        We pre-processing target image with coherence enhance diffusion (CED) filter, then extract SVM features from it and save it to the corresponding target image directory. Before apply the automatic segmentation, this method load the pre-processing CED SVM features by default. If we do CED filter and SVM feature extraction in the segmentation process, it will take much, much longer time to process the segmentation.

      • readModels

        private void readModels()
        Read SVM model atlas.

      • exit_input_error

        private static void exit_input_error​(int line_num,
                                     java.lang.Throwable cause)

      • exit_input_error

        private static void exit_input_error​(int line_num)

      • atof

        public static double atof​(java.lang.String s)

      • atoi

        public static int atoi​(java.lang.String s)
                throws java.lang.NumberFormatException
        Parameters:
        s - the string to parse for the integer value
        Throws:
        java.lang.IllegalArgumentException - if s is empty
        java.lang.NumberFormatException - see Integer.parseInt(String)

      • mergedClassifier

        public void mergedClassifier()
        After apply the AAM segmentation. We copy the resulting contour to SVM generated non-prostate binary mask image, prostate boundary image, and corresponding CED image. This method uses atlas SVM model to generate the binary maske image, and call a dynamic narrow band tracking algorithm to refine the final prostate boundary.

      • boundaryFinding

        public void boundaryFinding​(ModelImage nonProstateImage,
                            ModelImage boundaryImage,
                            ModelImage targetImageSlice,
                            int sliceNumber)
        Dynamic narrow band tracing algorithm. Based on the target CED image, non-prostate binary mask image and prostate boundary mask image, the algorithm stretches the AAM initialization contour, and generate the final prostate contour.
        Parameters:
        nonProstateImage - non-prostate binary mask image
        boundaryImage - prostate boundary mask image.
        targetImageSlice - target CED image
        sliceNumber - current processing slice number.

      • smoothVOI30

        public void smoothVOI30​(ModelImage maskImage,
                        ModelImage resultImage)
        Smooth VOI with 30 points.
        Parameters:
        maskImage - mask image with VOI
        resultImage - resulting image to hold the smoothed VOI.

      • maskDisplay

        public ModelImage maskDisplay​(int[] mask,
                              int sliceNumber)
        Display binary mask images. Debugging purpose.
        Parameters:
        mask -
        sliceNumber -
        Returns:

      • findBestImageNMI

        private void findBestImageNMI​(int targetImageSliceNumber,
                              int[] bestImageNumber,
                              int[] bestSliceNumber)
        NMI searching between target image and AAM atlas.
        Parameters:
        targetImageSliceNumber - target 2D slice number
        bestImageNumber - best matched image number
        bestSliceNumber - best matched slice number.

      • cropTargetImage

        public ModelImage cropTargetImage()
        Crop target image for SVM classification.
        Returns:

      • updateResultImage

        public void updateResultImage​(int sliceNumber,
                              ModelImage targetImageSlice)
        After the target image with final segmented VOI.
        Parameters:
        sliceNumber -
        targetImageSlice -

      • updateTargetImage

        public void updateTargetImage​(int sliceNumber,
                              ModelImage targetImageSlice)
        Copy the 2D slice segmented VOI to target image silce.
        Parameters:
        sliceNumber - corresponding slice number
        targetImageSlice - target slice number.

      • pause

        public static void pause()
        Pauses the display until the user hits enter.

      • readImagesAndVOIs

        public void readImagesAndVOIs()
        Read target image

      • readSVMModelDir

        private void readSVMModelDir()
        Read SVM model atlas.

      • svmTraverseDir

        private void svmTraverseDir​(java.io.File dir)
        Processing SVM model atlas.
        Parameters:
        dir -

      • svmSortModelStructure

        private void svmSortModelStructure()
        sort SVM model with names.

      • readTargetImage

        private void readTargetImage()
        Read target image.

      • readEndingSlicesDir

        private void readEndingSlicesDir()
        Read the ending slice index to guide the segmentation towards apex and base.

      • processingEndSliceData

        private void processingEndSliceData​(java.lang.String endSliceModelDir)
        Process the ending slice atlas directory.
        Parameters:
        endSliceModelDir - atlas directory.

      • readKeyImageDir

        private void readKeyImageDir()
        Read AAM model atlas.

      • readEndingSlice

        private void readEndingSlice()
        Read the end slices and update the segmentation processing range.

      • readSampleImages

        private void readSampleImages()
        Read the AAM model.

      • processingData

        private void processingData​(java.lang.String modelDir)
        Process AAM model directory.
        Parameters:
        modelDir -

      • traverse

        private void traverse​(java.io.File dir)
        Recursively read AAM dir, and update the AAM model structure.
        Parameters:
        dir -

      • processDir

        private void processDir​(java.io.File dir,
                        java.util.Vector<JDialogAAMplusSVM.ModelString> modelNameVector)
        Processing the AAM dir with AAM model string and pivot sample image name.
        Parameters:
        dir -
        modelNameVector -

      • disposeLocal

        public void disposeLocal()