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.JDialogProstateISBIfinalSurfaceEvalSeg

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 JDialogProstateISBIfinalSurfaceEvalSeg
extends JDialogBase
implements AlgorithmInterface
```
This class read nii binary mask files, convert them into a shell script list. "EvaluateSegmentation" software takes the list to run shell script for performance measure.

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
  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

Field Summary

Fields
Modifier and Type	Field	Description
`private javax.swing.JButton`	`buttonKeyImage`
`private javax.swing.JButton`	`buttonSaveImage`
`(package private) java.util.Hashtable<java.lang.String,java.util.Hashtable<java.lang.String,java.util.Hashtable<java.lang.String,java.lang.String>>>`	`fileNameTable`
`private javax.swing.JPanel`	`imageSelectionPanel`
`private javax.swing.JLabel`	`labelKeyImage`	key image directory.
`private javax.swing.JLabel`	`labelSaveImage`	saved 2D slices atlas dir.
`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

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

JDialogProstateISBIfinalSurfaceEvalSeg(java.awt.Frame theParentFrame)
Constructor.

Method Summary

All 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 memory
`void`	`init()`	Initial panel
`private void`	`printNIItable()`
`private void`	`readKeyImageDir()`	Read 3D images atlas directory.
`private void`	`recordSaveImageDir()`	Let user specify the saved 2D slices atlas, record the save directory.
`private void`	`traverse_firstLayer(java.io.File firstDir, java.lang.String orientation)`
`private void`	`traverse_Layer(java.io.File dir)`
`private void`	`traverse_nii(java.io.File secondLayer, java.lang.String orientation, java.lang.String hashID)`
`private void`	`traverse_secondLayer(java.io.File firstLayer, java.lang.String orientation)`

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 Detail

serialVersionUID
```
private static final long serialVersionUID
```
See Also:

Constant Field Values

UI
```
private ViewUserInterface UI
```
The main user interface.

labelKeyImage

private javax.swing.JLabel labelKeyImage

key image directory.

textFieldKeyImage

private javax.swing.JTextField textFieldKeyImage

buttonKeyImage

private javax.swing.JButton buttonKeyImage

imageSelectionPanel

private javax.swing.JPanel imageSelectionPanel

labelSaveImage

private javax.swing.JLabel labelSaveImage

saved 2D slices atlas dir.

textFieldSaveImage

private javax.swing.JTextField textFieldSaveImage

buttonSaveImage

private javax.swing.JButton buttonSaveImage

saveImageChooser

private javax.swing.JFileChooser saveImageChooser

saveImageDirectory

private java.lang.String saveImageDirectory

fileNameTable

java.util.Hashtable<java.lang.String,java.util.Hashtable<java.lang.String,java.util.Hashtable<java.lang.String,java.lang.String>>> fileNameTable

Constructor Detail
- JDialogProstateISBIfinalSurfaceEvalSeg
```
public JDialogProstateISBIfinalSurfaceEvalSeg(java.awt.Frame theParentFrame)
```
  Constructor.
  
  Parameters:
  
  theParentFrame -

Method Detail
- disposeLocal
```
public void disposeLocal()
```
  dispose memory
- actionPerformed
```
public void actionPerformed(java.awt.event.ActionEvent event)
```
  Dialog local actionPerformed handler.
  
  Specified by:
  
  actionPerformed in interface java.awt.event.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_Layer
```
private void traverse_Layer(java.io.File dir)
```
- traverse_firstLayer
```
private void traverse_firstLayer(java.io.File firstDir,
                                 java.lang.String orientation)
```
- printNIItable
```
private void printNIItable()
```
- traverse_secondLayer
```
private void traverse_secondLayer(java.io.File firstLayer,
                                  java.lang.String orientation)
```
- traverse_nii
```
private void traverse_nii(java.io.File secondLayer,
                          java.lang.String orientation,
                          java.lang.String hashID)
```
- 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.
- init
```
public void init()
```
  Initial panel
- buildKeyImagePanel
```
public void buildKeyImagePanel()
```
  Panel contains both the 3D image dir and saved 2D slices atlas dir.

Class JDialogProstateISBIfinalSurfaceEvalSeg

Nested Class Summary

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

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

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

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

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

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

Field Summary

Fields inherited from class gov.nih.mipav.view.dialogs.JDialogBase

Fields inherited from class javax.swing.JDialog

Fields inherited from class java.awt.Dialog

Fields inherited from class java.awt.Component

Fields inherited from interface java.awt.image.ImageObserver

Fields inherited from interface javax.swing.WindowConstants

Constructor Summary

Method Summary

Methods inherited from class gov.nih.mipav.view.dialogs.JDialogBase

Methods inherited from class javax.swing.JDialog

Methods inherited from class java.awt.Dialog

Methods inherited from class java.awt.Window

Methods inherited from class java.awt.Container

Methods inherited from class java.awt.Component

Methods inherited from class java.lang.Object

Field Detail

serialVersionUID

UI

labelKeyImage

textFieldKeyImage

buttonKeyImage

imageSelectionPanel

labelSaveImage

textFieldSaveImage

buttonSaveImage

saveImageChooser

saveImageDirectory

fileNameTable

Constructor Detail

JDialogProstateISBIfinalSurfaceEvalSeg

Method Detail

disposeLocal

actionPerformed

recordSaveImageDir

readKeyImageDir

traverse_Layer

traverse_firstLayer

printNIItable

traverse_secondLayer

traverse_nii

algorithmPerformed

callAlgorithm

init

buildKeyImagePanel