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

Class JDialogProstate2DSlicesAtlasPngConverter3DSurfaceEnergyMap

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.ProstateFramework.JDialogProstate2DSlicesAtlasPngConverter3DSurfaceEnergyMap

All Implemented Interfaces:

AlgorithmInterface, DialogDefaultsInterface, ActionListener, FocusListener, ItemListener, WindowListener, ImageObserver, MenuContainer, Serializable, EventListener, Accessible, RootPaneContainer, WindowConstants

public class JDialogProstate2DSlicesAtlasPngConverter3DSurfaceEnergyMap
extends JDialogBase
implements AlgorithmInterface

For ISBI 2017 paper: This class converts the HED generated energy maps into VOI contours. ISBI, we only use MR images slices, no CED involved.

Author:

Ruida Cheng

See Also:

• Serialized Form

Nested Class Summary

Nested classes/interfaces inherited from class gov.nih.mipav.view.dialogs.JDialogBase

JDialogBase.CancelAction, JDialogBase.HelpAction, JDialogBase.OKAction

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

JDialog.AccessibleJDialog

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

Dialog.AccessibleAWTDialog, Dialog.ModalExclusionType, Dialog.ModalityType

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

Window.AccessibleAWTWindow, Window.Type

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

Container.AccessibleAWTContainer

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

Component.AccessibleAWTComponent, Component.BaselineResizeBehavior, Component.BltBufferStrategy, Component.FlipBufferStrategy

Field Summary

Fields

Modifier and Type	Field	Description
private JButton	buttonKeyImage
private JButton	buttonSaveImage
(package private) Hashtable<String,Integer>	dicomTable
private JPanel	imageSelectionPanel
(package private) Hashtable<String,Vector<String>>	imageTable
private Vector<String>	keyImageVector5
private Vector<String>	keyImageVOIVector5
private JLabel	labelKeyImage	key image directory.
private JLabel	labelSaveImage	saved 2D slices atlas dir.
(package private) Hashtable<String,Vector<String>>	maskImageTable
(package private) Hashtable<String,Vector<ModelImage>>	maskTable
(package private) Hashtable<String,Hashtable<String,ModelImage>>	origImageTable
(package private) Hashtable<String,Hashtable<String,String>>	origImageTableName
(package private) Hashtable<String,Hashtable<String,String>>	origVOITableName
private JFileChooser	saveImageChooser
private String	saveImageDirectory
private static final long	serialVersionUID
private JTextField	textFieldKeyImage
private JTextField	textFieldSaveImage
private ViewUserInterface	UI	The main user interface.
(package private) Hashtable<String,Integer>	voiTable

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

Fields inherited from class javax.swing.JDialog

accessibleContext, rootPane, rootPaneCheckingEnabled

Fields inherited from class java.awt.Dialog

DEFAULT_MODALITY_TYPE

Fields inherited from class java.awt.Component

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 javax.swing.WindowConstants

DISPOSE_ON_CLOSE, DO_NOTHING_ON_CLOSE, EXIT_ON_CLOSE, HIDE_ON_CLOSE

Constructor Summary

Constructors

Constructor	Description
JDialogProstate2DSlicesAtlasPngConverter3DSurfaceEnergyMap(Frame theParentFrame)	Constructor.

Method Summary

Modifier and Type	Method	Description
void	actionPerformed(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 memory
private void	generateContours()
void	init()	Initial panel
private void	processDir_folder_5(File dir)
private void	processDir_folder_5(File dir, String hashID)
void	readImages()
private void	readKeyImageDir()	Read 3D images atlas directory.
private void	recordSaveImageDir()	Let user specify the saved 2D slices atlas, record the save directory.
void	smoothVOI30(ModelImage maskImage, ModelImage resultImage)
private void	sortImageTable()
void	sortKeyImage_5()
private void	traverse_firstLayer(File firstDir, String child)
private void	traverse_folder_5(File dir)
private void	traverse_folder_5(File dir, String hashID)
private void	traverse_Layer(File dir)
private void	traverse_secondLayer(File firstLayer, String hashID)

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

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 Details

serialVersionUID

private static final long serialVersionUID

See Also:

• Constant Field Values

UI

private ViewUserInterface UI

The main user interface.

labelKeyImage

private JLabel labelKeyImage

key image directory.

textFieldKeyImage

private JTextField textFieldKeyImage

buttonKeyImage

private JButton buttonKeyImage

imageSelectionPanel

private JPanel imageSelectionPanel

keyImageVector5

private Vector<String> keyImageVector5

keyImageVOIVector5

private Vector<String> keyImageVOIVector5

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

origImageTable

Hashtable<String,Hashtable<String,ModelImage>> origImageTable

origImageTableName

Hashtable<String,Hashtable<String,String>> origImageTableName

origVOITableName

Hashtable<String,Hashtable<String,String>> origVOITableName

imageTable

Hashtable<String,Vector<String>> imageTable

maskTable

Hashtable<String,Vector<ModelImage>> maskTable

maskImageTable

Hashtable<String,Vector<String>> maskImageTable

dicomTable

Hashtable<String,Integer> dicomTable

voiTable

Hashtable<String,Integer> voiTable

Constructor Details

JDialogProstate2DSlicesAtlasPngConverter3DSurfaceEnergyMap

public JDialogProstate2DSlicesAtlasPngConverter3DSurfaceEnergyMap(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

sortImageTable

private void sortImageTable()

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_Layer

private void traverse_Layer(File dir)

traverse_firstLayer

private void traverse_firstLayer(File firstDir,
 String child)

traverse_secondLayer

private void traverse_secondLayer(File firstLayer,
 String hashID)

traverse_folder_5

private void traverse_folder_5(File dir)

traverse_folder_5

private void traverse_folder_5(File dir,
 String hashID)

processDir_folder_5

private void processDir_folder_5(File dir,
 String hashID)

processDir_folder_5

private void processDir_folder_5(File dir)

sortKeyImage_5

public void sortKeyImage_5()

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.

generateContours

private void generateContours()

smoothVOI30

public void smoothVOI30(ModelImage maskImage,
 ModelImage resultImage)

readImages

public void readImages()

init

public void init()

Initial panel

buildKeyImagePanel

public void buildKeyImagePanel()

Panel contains both the 3D image dir and saved 2D slices atlas dir.