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

Class JDialogLearnFromFailure64Knees

java.lang.Object
java.awt.Component
java.awt.Container
java.awt.Window
java.awt.Dialog
javax.swing.JDialog
gov.nih.mipav.view.dialogs.JDialogBase
gov.nih.mipav.view.renderer.WildMagic.Knees.JDialogLearnFromFailure64Knees
All Implemented Interfaces:
AlgorithmInterface, DialogDefaultsInterface, ActionListener, FocusListener, ItemListener, WindowListener, ImageObserver, MenuContainer, Serializable, EventListener, Accessible, RootPaneContainer, WindowConstants
public class JDialogLearnFromFailure64Knees extends JDialogBase implements AlgorithmInterface
Generate the 2D 32x32 patches for both training and testing cased. 1) AAM generates the initial contours. 2) Alone each normal line of the contour point, extract 32x32 patches for both training and testing cases -------------------------------------------------------- No longer need it. Just for backup purpose now. --------------------------------------------------------
Author:
Ruida Cheng
See Also:

  • Field Details

    • serialVersionUID

      private static final long serialVersionUID
      See Also:

    • UI

      private ViewUserInterface UI
      The main user interface.

    • boxYmin

      private int boxYmin
      bounding box for crop the image. Currently set from 0 to 512, the orginal image slice size.

    • boxYmax

      private int boxYmax
      bounding box for crop the image. Currently set from 0 to 512, the orginal image slice size.

    • boxXmin

      private int boxXmin

    • boxXmax

      private int boxXmax

    • xBounds

      private int[] xBounds
      X cropped region bounds.

    • yBounds

      private int[] yBounds
      Y cropped region bounds.

    • zBounds

      private int[] zBounds
      Z cropped region bound.

    • cropAlgo

      private AlgorithmAddMargins cropAlgo
      crop margin algorithm.

    • cropImage

      private ModelImage cropImage
      result cropped image.

    • labelKeyImage

      private JLabel labelKeyImage
      key image directory.

    • textFieldKeyImage

      private JTextField textFieldKeyImage

    • buttonKeyImage

      private JButton buttonKeyImage

    • imageSelectionPanel

      private JPanel imageSelectionPanel

    • keyImageChooser

      private JFileChooser keyImageChooser
      key images variables.

    • keyImageDirectory

      private String keyImageDirectory

    • axisList

      private JComboBox axisList

    • labelAxis

      private JLabel labelAxis

    • Axial

      private static int Axial

    • Saggital

      private static int Saggital

    • Coronal

      private static int Coronal

    • axis

      private int axis

    • keyImageVector

      private Vector<String> keyImageVector
      image vector to hold the image names.

    • keyImages

      private Vector<ModelImage> keyImages
      image vector to hold the actual images.

    • keyImageVOIVector

      private Vector<String> keyImageVOIVector
      voi vector to hold the VOI names.

    • keyImageVOIVectorAAM

      private Vector<String> keyImageVOIVectorAAM

    • keyImageVOIs

      private Vector<VOI[]> keyImageVOIs
      voi vector to hold the actual vois.

    • cropKeyImages

      private Vector<ModelImage> cropKeyImages
      cropped key image vector.

    • labelSaveImage

      private JLabel labelSaveImage
      saved 2D slices atlas dir.

    • textFieldSaveImage

      private JTextField textFieldSaveImage

    • buttonSaveImage

      private JButton buttonSaveImage

    • saveImageChooser

      private JFileChooser saveImageChooser

    • saveImageDirectory

      private String saveImageDirectory

  • Constructor Details

    • JDialogLearnFromFailure64Knees

      public JDialogLearnFromFailure64Knees(Frame theParentFrame)
      Constructor.
      Parameters:
      theParentFrame -

  • Method Details

    • disposeLocal

      public void disposeLocal()
      dispose memory

    • actionPerformed

      public void actionPerformed(ActionEvent event)
      Dialog local actionPerformed handler.
      Specified by:
      actionPerformed in interface ActionListener
      Overrides:
      actionPerformed in class JDialogBase

    • recordSaveImageDir

      private void recordSaveImageDir()
      Let user specify the saved 2D slices atlas, record the save directory.

    • readKeyImageDir

      private void readKeyImageDir()
      Read 3D images atlas directory.

    • traverse

      private void traverse(File dir)
      Recursively traverse the image directory.
      Parameters:
      dir - image dir.

    • printImages

      public void printImages()
      Debugger for test the image and VOis reading.

    • processDir

      private void processDir(File dir)
      Process the dir, read image and corresponding VOI file names.
      Parameters:
      dir - 3D atlas image dir.

    • algorithmPerformed

      public void algorithmPerformed(AlgorithmBase algorithm)
      This method is required if the AlgorithmPerformed interface is implemented. It is called by the algorithms when it has completed or failed to to complete, so that the dialog can be display the result image and/or clean up.
      Specified by:
      algorithmPerformed in interface AlgorithmInterface
      Parameters:
      algorithm - Algorithm that caused the event.

    • callAlgorithm

      public void callAlgorithm()
      Driver function to read image and VOIs, and convert each 3D image to 2D slices.

    • createTestingPatches

      public void createTestingPatches()

    • createTrainingPatches

      public void createTrainingPatches()

    • testingPatches

      public void testingPatches(ModelImage keyImage, int i, int startSliceIndex, int endSliceIndex, float minIntensity, float maxIntensity, boolean train, BufferedWriter outStream)

    • trainingPatches

      public void trainingPatches(ModelImage keyImage, int i, int startSliceIndex, int endSliceIndex, float minIntensity, float maxIntensity, boolean train)

    • saveImages

      public void saveImages()
      Save the 2D slices and VOIs to user specified dir.

    • rotateToStartingPoint_yMid

      private void rotateToStartingPoint_yMid(float[] xPts, float[] yPts, int xDim, int yDim)
      Re-oriented the starting and ending VOIs.
      Parameters:
      xPts - voi x coordinate
      yPts - voi y coordinate
      xDim - image x dimension
      yDim - image y dimension

    • rotateToStartingPoint_leftMost

      private void rotateToStartingPoint_leftMost(float[] xPts, float[] yPts, int xDim, int yDim)

    • smoothVOI30

      public void smoothVOI30(ModelImage maskImage, ModelImage resultImage)

    • smoothVOI60

      public void smoothVOI60(ModelImage maskImage, ModelImage resultImage)
      Smooth VOIs to 60 points.
      Parameters:
      maskImage -
      resultImage -

    • smoothVOI128

      public void smoothVOI128(ModelImage maskImage, ModelImage resultImage)

    • smoothVOI32

      public void smoothVOI32(ModelImage maskImage, ModelImage resultImage)

    • generateBoundaryContours

      private void generateBoundaryContours(VOIBase srcContour, ModelImage targetImageSlice)
      Convert VOI from one contour to two contours
      Parameters:
      srcContour - single VOI contour
      targetImageSlice - target 2D image slice

    • cropKeyImages

      public void cropKeyImages()
      Crop key images.

    • loadFiles

      public void loadFiles()
      load image files and voi files

    • deleteDir

      public static boolean deleteDir(File dir)
      Debugger to test dir deletion.
      Parameters:
      dir -
      Returns:

    • readFiles

      public void readFiles()
      Read image and VOIs file names.

    • init

      public void init()
      Initial panel

    • buildKeyImagePanel

      public void buildKeyImagePanel()
      Panel contains both the 3D image dir and saved 2D slices atlas dir.