Class JDialogSK10_MRI_map_nopre
- java.lang.Object
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- java.awt.Component
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- java.awt.Container
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- java.awt.Window
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- java.awt.Dialog
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- javax.swing.JDialog
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- gov.nih.mipav.view.dialogs.JDialogBase
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- gov.nih.mipav.view.renderer.WildMagic.Knees.JDialogSK10_MRI_map_nopre
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- 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 JDialogSK10_MRI_map_nopre extends JDialogBase implements AlgorithmInterface
This class generates the knees VOI contours from the deep learning HED MRI maps.- Author:
- Ruida Cheng
- See Also:
- Serialized Form
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Nested Class Summary
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Nested classes/interfaces inherited from class gov.nih.mipav.view.dialogs.JDialogBase
JDialogBase.CancelAction, JDialogBase.HelpAction, JDialogBase.OKAction
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Nested classes/interfaces inherited from class javax.swing.JDialog
javax.swing.JDialog.AccessibleJDialog
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Nested classes/interfaces inherited from class java.awt.Dialog
java.awt.Dialog.AccessibleAWTDialog, java.awt.Dialog.ModalExclusionType, java.awt.Dialog.ModalityType
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Nested classes/interfaces inherited from class java.awt.Window
java.awt.Window.AccessibleAWTWindow, java.awt.Window.Type
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Field Summary
Fields Modifier and Type Field Description private javax.swing.JButton
buttonKeyImage
private javax.swing.JButton
buttonSaveImage
private java.util.Vector<ModelImage>
cropKeyImages
cropped key image vector.private javax.swing.JPanel
imageSelectionPanel
(package private) java.util.Hashtable<java.lang.String,java.util.Vector<java.lang.String>>
imageTable
private java.util.Vector<ModelImage>
keyImages
image vector to hold the actual images.(package private) java.util.Hashtable<java.lang.String,ModelImage>
keyImagesOrientation
private java.util.Vector<VOI[]>
keyImageVOIs
voi vector to hold the actual vois.private javax.swing.JLabel
labelKeyImage
key image directory.private javax.swing.JLabel
labelSaveImage
saved 2D slices atlas dir.(package private) java.util.Hashtable<java.lang.String,java.util.Vector<java.lang.String>>
maskImageTable
(package private) java.util.Hashtable<java.lang.String,java.util.Vector<ModelImage>>
maskTable
(package private) java.util.Hashtable<java.lang.String,java.lang.String>
nameTableImages
(package private) java.util.Hashtable<java.lang.String,java.util.Vector<java.lang.String>>
newImageTable
private javax.swing.JFileChooser
saveImageChooser
private java.lang.String
saveImageDirectory
private static long
serialVersionUID
private javax.swing.JTextField
textFieldKeyImage
private javax.swing.JTextField
textFieldSaveImage
private ViewUserInterface
UI
The main user interface.-
Fields inherited from class gov.nih.mipav.view.dialogs.JDialogBase
applyButton, bar, cancelButton, cancelFlag, closeButton, HELP, helpButton, mainDialogPanel, NEW, OKButton, parentFrame, progressBar, REPLACE, runInSeparateThread, runningScriptFlag, runQuiet, serif12, serif12B, voiManager
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Fields inherited from class javax.swing.JDialog
accessibleContext, rootPane, rootPaneCheckingEnabled
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Fields inherited from class java.awt.Component
BOTTOM_ALIGNMENT, CENTER_ALIGNMENT, LEFT_ALIGNMENT, RIGHT_ALIGNMENT, TOP_ALIGNMENT
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Constructor Summary
Constructors Constructor Description JDialogSK10_MRI_map_nopre(java.awt.Frame theParentFrame)
Constructor.
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Method Summary
All Methods Static Methods Instance Methods Concrete Methods Modifier and Type Method Description void
actionPerformed(java.awt.event.ActionEvent event)
Dialog local actionPerformed handler.void
algorithmPerformed(AlgorithmBase algorithm)
This method is required if the AlgorithmPerformed interface is implemented.void
buildKeyImagePanel()
Panel contains both the 3D image dir and saved 2D slices atlas dir.void
callAlgorithm()
Driver function to read image and VOIs, and convert each 3D image to 2D slices.void
disposeLocal()
dispose memoryprivate void
generateContours_MRI()
Generate the VOI contours from MRI prediction only.void
init()
Initial panelstatic void
pause()
private void
processDir_folder_map(java.io.File dir, int index)
HNN generates multi-scaled prediction output.private void
read_image_name(java.io.File dir)
Grab the test image in mipav .xml file format.void
readFile()
Read testing images and the HNN predcited probability maps.private void
readKeyImageDir()
Parsing 3D images directory and the HNN generated probablity maps directoryprivate void
recordSaveImageDir()
Let user specify the saved 2D slices atlas, record the save directory.void
smoothVOI30(ModelImage maskImage, ModelImage resultImage)
private void
sortImageTable()
Sort the testing image directory in accending order.private void
traverse_folder_map(java.io.File dir)
private void
traverse_folder_map(java.io.File dir, int index)
Traverse the HNN subdirectories.private void
traverse_image_folder(java.io.File dir, java.lang.String hashID)
Traverse the test image folder-
Methods inherited from class gov.nih.mipav.view.dialogs.JDialogBase
buildApplyButton, buildButtons, buildCancelButton, buildCancelButton, buildCloseButton, buildHelpButton, buildImageComboBox, buildOKButton, buildOKButton, buildOKCancelButtons, buildTitledBorder, buildTitledBorder, createLabel, createProgressBar, createProgressBar, createTextField, focusGained, focusLost, getDialogName, isCancelled, isQuietRunning, isRunInSeparateThread, isScriptRunning, itemStateChanged, loadDefaults, loadDefaults, makeImageName, makeString, openNewFrame, saveDefaults, saveDefaults, setLeftHandSystem, setQuietRunning, setScriptRunning, setSeparateThread, setVisible, setVisible, setVisibleMenuBar, setVisibleStandard, setVOIManager, setWCSystem, testParameter, testParameterMin, updateFFTFileInfo, updateFileInfo, updateFileInfoOtherModality, updateFileInfoStatic, updateFileInfoStatic, updateFileTypeInfo, updateFileTypeInfo, windowActivated, windowClosed, windowClosing, windowDeactivated, windowDeiconified, windowIconified, windowOpened
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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
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Methods inherited from class java.awt.Dialog
addNotify, getModalityType, getTitle, hide, isModal, isResizable, isUndecorated, setBackground, setModal, setModalityType, setOpacity, setResizable, setShape, setTitle, setUndecorated, show, toBack
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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
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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
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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
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Field Detail
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serialVersionUID
private static final long serialVersionUID
- See Also:
- Constant Field Values
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UI
private ViewUserInterface UI
The main user interface.
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labelKeyImage
private javax.swing.JLabel labelKeyImage
key image directory.
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textFieldKeyImage
private javax.swing.JTextField textFieldKeyImage
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buttonKeyImage
private javax.swing.JButton buttonKeyImage
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imageSelectionPanel
private javax.swing.JPanel imageSelectionPanel
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keyImages
private java.util.Vector<ModelImage> keyImages
image vector to hold the actual images.
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keyImageVOIs
private java.util.Vector<VOI[]> keyImageVOIs
voi vector to hold the actual vois.
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cropKeyImages
private java.util.Vector<ModelImage> cropKeyImages
cropped key image vector.
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labelSaveImage
private javax.swing.JLabel labelSaveImage
saved 2D slices atlas dir.
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textFieldSaveImage
private javax.swing.JTextField textFieldSaveImage
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buttonSaveImage
private javax.swing.JButton buttonSaveImage
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saveImageChooser
private javax.swing.JFileChooser saveImageChooser
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saveImageDirectory
private java.lang.String saveImageDirectory
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imageTable
java.util.Hashtable<java.lang.String,java.util.Vector<java.lang.String>> imageTable
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newImageTable
java.util.Hashtable<java.lang.String,java.util.Vector<java.lang.String>> newImageTable
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maskTable
java.util.Hashtable<java.lang.String,java.util.Vector<ModelImage>> maskTable
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maskImageTable
java.util.Hashtable<java.lang.String,java.util.Vector<java.lang.String>> maskImageTable
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nameTableImages
java.util.Hashtable<java.lang.String,java.lang.String> nameTableImages
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keyImagesOrientation
java.util.Hashtable<java.lang.String,ModelImage> keyImagesOrientation
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Method Detail
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disposeLocal
public void disposeLocal()
dispose memory
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actionPerformed
public void actionPerformed(java.awt.event.ActionEvent event)
Dialog local actionPerformed handler.- Specified by:
actionPerformed
in interfacejava.awt.event.ActionListener
- Overrides:
actionPerformed
in classJDialogBase
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sortImageTable
private void sortImageTable()
Sort the testing image directory in accending order.
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pause
public static void pause()
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recordSaveImageDir
private void recordSaveImageDir()
Let user specify the saved 2D slices atlas, record the save directory.
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readKeyImageDir
private void readKeyImageDir()
Parsing 3D images directory and the HNN generated probablity maps directory
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traverse_image_folder
private void traverse_image_folder(java.io.File dir, java.lang.String hashID)
Traverse the test image folder
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read_image_name
private void read_image_name(java.io.File dir)
Grab the test image in mipav .xml file format.- Parameters:
dir
- image sub-directory name
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traverse_folder_map
private void traverse_folder_map(java.io.File dir)
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traverse_folder_map
private void traverse_folder_map(java.io.File dir, int index)
Traverse the HNN subdirectories.- Parameters:
dir
- directory nameindex
- map index
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processDir_folder_map
private void processDir_folder_map(java.io.File dir, int index)
HNN generates multi-scaled prediction output. We use fuse layer generated output as the energy map to inference the VOI contour.- Parameters:
dir
- sub-directory name.index
- probablity map index
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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 interfaceAlgorithmInterface
- Parameters:
algorithm
- Algorithm that caused the event.
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callAlgorithm
public void callAlgorithm()
Driver function to read image and VOIs, and convert each 3D image to 2D slices.
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generateContours_MRI
private void generateContours_MRI()
Generate the VOI contours from MRI prediction only. As one ablation experiment in the MRM paper.
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smoothVOI30
public void smoothVOI30(ModelImage maskImage, ModelImage resultImage)
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readFile
public void readFile()
Read testing images and the HNN predcited probability maps.
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init
public void init()
Initial panel
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buildKeyImagePanel
public void buildKeyImagePanel()
Panel contains both the 3D image dir and saved 2D slices atlas dir.
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