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.dialogs.JDialogScriptableBase
        
        gov.nih.mipav.view.dialogs.JDialogBrainSurfaceExtractor

All Implemented Interfaces:

AlgorithmInterface, ScriptableActionInterface, DialogDefaultsInterface, ActionDiscovery, 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 JDialogBrainSurfaceExtractor
extends JDialogScriptableBase
implements AlgorithmInterface, ActionDiscovery
```
This dialog collects parameters for the BSE algorithm and then starts it up.

Version:

1.0 June 3, 2004

Author:

Evan McCreedy

See Also:

AlgorithmBrainSurfaceExtractor, 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 static int`	`closeIterations`	Number of closing operations to perform.
`private static int`	`closeKernelPixels`	The nuber of pixels to include in the initial closing kernel diameter.
`private float`	`closeKernelSize`	Size of the kernel used in the closing operations.
`private javax.swing.JTextField`	`closeKernelSizeTF`	Text field used to enter the number of closings to perform.
`private float`	`edgeKernelSize`	Edge detection kernel size (.6 in Shattuck paper).
`private javax.swing.JTextField`	`edgeKernelSizeTF`	Text field used to enter the edge detection kernel size.
`private boolean`	`erosion25D`	Whether to process the slices of the 3D image separately while performing the erosion / dilation.
`private javax.swing.JCheckBox`	`erosion25DCB`	Check box for indicating whether erosion / dilation should process slices independently.
`private int`	`erosionIterations`	Number of erosion / dilation operations to perform (2 in Shattuck paper).
`private javax.swing.JTextField`	`erosionIterationsTF`	Text field used to enter the number of erosions / dilations.
`private AlgorithmBrainSurfaceExtractor`	`extractBrainAlgo`	Reference to the algorithm we will be running.
`private boolean`	`extractPaint`	Whether to extract the brain to paint instead of removing image data.
`private javax.swing.JCheckBox`	`extractPaintCheckBox`	Checkbox to extract the brain to paint instead of removing image data.
`private boolean`	`fillHoles`	Whether to fill in all internal holes in the extracted brain.
`private javax.swing.JCheckBox`	`fillHolesCB`	Checkbox for indicating whether to close all of the interior holes in the extracted brain.
`private float`	`filterGaussianStdDev`	Standard deviation of the filter's gaussian kernel.
`private javax.swing.JTextField`	`filterGaussianStdDevTF`	Text field used to enter the standard deviation of the filter's gaussian kernel.
`private int`	`filterIterations`	Number of filter iterations.
`private javax.swing.JTextField`	`filterIterationsTF`	Text field used to enter the number of filter iterations.
`private ModelImage`	`image`	The source image.
`private ModelImage`	`imageCopy`	A copy of the source image to run the algorithm on.
`private java.lang.String`	`imgName`	The original image name.
`private ModelImage`	`resultImage`	The result image.
`private static long`	`serialVersionUID`	Use serialVersionUID for interoperability.
`private boolean`	`showIntermediateImages`	Whether to show images from intermediate steps of the BSE algorithm.
`private javax.swing.JCheckBox`	`showIntermediateImagesCB`	Checkbox to show images which can help in paramater tweaking.
`private ViewUserInterface`	`userInterface`	Reference to the main user interface.
`private boolean`	`useSeparable`	Whether to use a separable convolver during edge detection.
`private javax.swing.JCheckBox`	`useSeparableCB`	Checkbox to elect to use the separable convolver in the edge detection algorithm.

Fields inherited from class gov.nih.mipav.view.dialogs.JDialogScriptableBase
displayInNewFrame, isComplete, scriptParameters

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
`JDialogBrainSurfaceExtractor()`	Empty constructor needed for dynamic instantiation (used during scripting).
`JDialogBrainSurfaceExtractor(java.awt.Frame theParentFrame, ModelImage im)`	Sets the appropriate variables.

Method Summary

All Methods Instance Methods Concrete Methods
Modifier and Type	Method	Description
`void`	`actionPerformed(java.awt.event.ActionEvent event)`	Handles events generated by the user interface, and takes appropriate action.
`void`	`algorithmPerformed(AlgorithmBase algorithm)`	This method is required if the AlgorithmPerformed interface is implemented.
`void`	`callAlgorithm()`	Calls the algorithm.
`ParameterTable`	`createInputParameters()`	Returns a table listing the input parameters of this algorithm (which should match up with the scripting parameters used in `setGUIFromParams()`).
`ParameterTable`	`createOutputParameters()`	Returns a table listing the output parameters of this algorithm (usually just labels used to obtain output image names later).
`protected void`	`doPostAlgorithmActions()`	Store the result image in the script runner's image table now that the action execution is finished.
`ActionMetadata`	`getActionMetadata()`	Return meta-information about this discoverable action for categorization and labeling purposes.
`java.lang.String`	`getOutputImageName(java.lang.String imageParamName)`	Returns the name of an image output by this algorithm, the image returned depends on the parameter label given (which can be used to retrieve the image object from the image registry).
`private void`	`init()`	Makes the GUI elements of the dialog.
`boolean`	`isActionComplete()`	Returns whether the action has successfully completed its execution.
`void`	`setEdgeKernelSize(float s)`	Accessor to set the edge detection kernel size.
`void`	`setErosionIterations(int iter)`	Accessor to set the number of erosions / dialations.
`void`	`setExtractPaint(boolean b)`	Accessor to set the extract to paint parameter.
`void`	`setFillHoles(boolean b)`	Accessor to set the fill holes parameter.
`void`	`setFilterGaussianStdDev(float s)`	Accessor to set the filter's gaussian standard deviation.
`void`	`setFilterIterations(int iter)`	Accessor to set the number of filter iterations.
`protected void`	`setGUIFromParams()`	Set the dialog GUI using the script parameters while running this algorithm as part of a script.
`void`	`setShowIntermediateImages(boolean show)`	Accessor to set whether intermediate images will be produced.
`void`	`setUseSeparable(boolean use)`	Accessor to set whether to use the separable convolver for edge detection.
`private boolean`	`setVariables()`	Use the GUI results to set up the variables needed to run the algorithm.
`protected void`	`storeParamsFromGUI()`	Record the parameters just used to run this algorithm in a script.

Methods inherited from class gov.nih.mipav.view.dialogs.JDialogScriptableBase
getDialogActionString, insertScriptLine, isComplete, scriptRun, setComplete

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

Methods inherited from interface gov.nih.mipav.view.dialogs.ActionDiscovery
scriptRun

- Field Detail
  - serialVersionUID
```
private static final long serialVersionUID
```
    Use serialVersionUID for interoperability.
    
    See Also:
    
    Constant Field Values
  - closeKernelPixels
```
private static final int closeKernelPixels
```
    The nuber of pixels to include in the initial closing kernel diameter.
    
    See Also:
    
    Constant Field Values
  - closeIterations
```
private static final int closeIterations
```
    Number of closing operations to perform.
    
    See Also:
    
    Constant Field Values
  - closeKernelSize
```
private float closeKernelSize
```
    Size of the kernel used in the closing operations.
  - closeKernelSizeTF
```
private javax.swing.JTextField closeKernelSizeTF
```
    Text field used to enter the number of closings to perform.
  - edgeKernelSize
```
private float edgeKernelSize
```
    Edge detection kernel size (.6 in Shattuck paper).
  - edgeKernelSizeTF
```
private javax.swing.JTextField edgeKernelSizeTF
```
    Text field used to enter the edge detection kernel size.
  - erosion25D
```
private boolean erosion25D
```
    Whether to process the slices of the 3D image separately while performing the erosion / dilation.
  - erosion25DCB
```
private javax.swing.JCheckBox erosion25DCB
```
    Check box for indicating whether erosion / dilation should process slices independently.
  - erosionIterations
```
private int erosionIterations
```
    Number of erosion / dilation operations to perform (2 in Shattuck paper).
  - erosionIterationsTF
```
private javax.swing.JTextField erosionIterationsTF
```
    Text field used to enter the number of erosions / dilations.
  - extractBrainAlgo
```
private AlgorithmBrainSurfaceExtractor extractBrainAlgo
```
    Reference to the algorithm we will be running.
  - extractPaint
```
private boolean extractPaint
```
    Whether to extract the brain to paint instead of removing image data.
  - extractPaintCheckBox
```
private javax.swing.JCheckBox extractPaintCheckBox
```
    Checkbox to extract the brain to paint instead of removing image data.
  - fillHoles
```
private boolean fillHoles
```
    Whether to fill in all internal holes in the extracted brain.
  - fillHolesCB
```
private javax.swing.JCheckBox fillHolesCB
```
    Checkbox for indicating whether to close all of the interior holes in the extracted brain.
  - filterGaussianStdDev
```
private float filterGaussianStdDev
```
    Standard deviation of the filter's gaussian kernel.
  - filterGaussianStdDevTF
```
private javax.swing.JTextField filterGaussianStdDevTF
```
    Text field used to enter the standard deviation of the filter's gaussian kernel.
  - filterIterations
```
private int filterIterations
```
    Number of filter iterations.
  - filterIterationsTF
```
private javax.swing.JTextField filterIterationsTF
```
    Text field used to enter the number of filter iterations.
  - image
```
private ModelImage image
```
    The source image.
  - imageCopy
```
private ModelImage imageCopy
```
    A copy of the source image to run the algorithm on.
  - imgName
```
private java.lang.String imgName
```
    The original image name.
  - resultImage
```
private ModelImage resultImage
```
    The result image.
  - showIntermediateImages
```
private boolean showIntermediateImages
```
    Whether to show images from intermediate steps of the BSE algorithm.
  - showIntermediateImagesCB
```
private javax.swing.JCheckBox showIntermediateImagesCB
```
    Checkbox to show images which can help in paramater tweaking.
  - userInterface
```
private ViewUserInterface userInterface
```
    Reference to the main user interface.
  - useSeparable
```
private boolean useSeparable
```
    Whether to use a separable convolver during edge detection.
  - useSeparableCB
```
private javax.swing.JCheckBox useSeparableCB
```
    Checkbox to elect to use the separable convolver in the edge detection algorithm.
- Constructor Detail
  - JDialogBrainSurfaceExtractor
```
public JDialogBrainSurfaceExtractor()
```
    Empty constructor needed for dynamic instantiation (used during scripting).
  - JDialogBrainSurfaceExtractor
```
public JDialogBrainSurfaceExtractor(java.awt.Frame theParentFrame,
                                    ModelImage im)
```
    Sets the appropriate variables.
    
    Parameters:
    
    theParentFrame - Parent frame.
    
    im - Source image.
- Method Detail
  - actionPerformed
```
public void actionPerformed(java.awt.event.ActionEvent event)
```
    Handles events generated by the user interface, and takes appropriate action.
    
    Specified by:
    
    actionPerformed in interface java.awt.event.ActionListener
    
    Overrides:
    
    actionPerformed in class JDialogBase
    
    Parameters:
    
    event - event that triggers function
  - 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 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()
```
    Calls the algorithm.
    
    Specified by:
    
    callAlgorithm in class JDialogScriptableBase
  - setEdgeKernelSize
```
public void setEdgeKernelSize(float s)
```
    Accessor to set the edge detection kernel size.
    
    Parameters:
    
    s - the kernel size for edge detection
  - setFillHoles
```
public void setFillHoles(boolean b)
```
    Accessor to set the fill holes parameter.
    
    Parameters:
    
    b - when true holes are filled.
  - setExtractPaint
```
public void setExtractPaint(boolean b)
```
    Accessor to set the extract to paint parameter.
    
    Parameters:
    
    b - when true extract to paint.
  - setErosionIterations
```
public void setErosionIterations(int iter)
```
    Accessor to set the number of erosions / dialations.
    
    Parameters:
    
    iter - the number of erosions / dialations to do
  - setFilterGaussianStdDev
```
public void setFilterGaussianStdDev(float s)
```
    Accessor to set the filter's gaussian standard deviation.
    
    Parameters:
    
    s - the standard deviation
  - setFilterIterations
```
public void setFilterIterations(int iter)
```
    Accessor to set the number of filter iterations.
    
    Parameters:
    
    iter - the number of filtering passes to make
  - setShowIntermediateImages
```
public void setShowIntermediateImages(boolean show)
```
    Accessor to set whether intermediate images will be produced.
    
    Parameters:
    
    show - whether to keep intermediate images made
  - setUseSeparable
```
public void setUseSeparable(boolean use)
```
    Accessor to set whether to use the separable convolver for edge detection.
    
    Parameters:
    
    use - whether use the separable convolver
  - doPostAlgorithmActions
```
protected void doPostAlgorithmActions()
```
    Store the result image in the script runner's image table now that the action execution is finished.
    
    Overrides:
    
    doPostAlgorithmActions in class JDialogScriptableBase
  - setGUIFromParams
```
protected void setGUIFromParams()
```
    Set the dialog GUI using the script parameters while running this algorithm as part of a script.
    
    Specified by:
    
    setGUIFromParams in class JDialogScriptableBase
  - storeParamsFromGUI
```
protected void storeParamsFromGUI()
                           throws ParserException
```
    Record the parameters just used to run this algorithm in a script.
    
    Specified by:
    
    storeParamsFromGUI in class JDialogScriptableBase
    
    Throws:
    
    ParserException - If there is a problem creating/recording the new parameters.
  - init
```
private void init()
```
    Makes the GUI elements of the dialog.
  - setVariables
```
private boolean setVariables()
```
    Use the GUI results to set up the variables needed to run the algorithm.
    
    Returns:
    
    true if parameters set successfully, false otherwise.
  - getActionMetadata
```
public ActionMetadata getActionMetadata()
```
    Return meta-information about this discoverable action for categorization and labeling purposes.
    
    Specified by:
    
    getActionMetadata in interface ActionDiscovery
    
    Returns:
    
    Metadata for this action.
  - createInputParameters
```
public ParameterTable createInputParameters()
```
    Returns a table listing the input parameters of this algorithm (which should match up with the scripting parameters used in setGUIFromParams()).
    
    Specified by:
    
    createInputParameters in interface ActionDiscovery
    
    Returns:
    
    A parameter table listing the inputs of this algorithm.
  - createOutputParameters
```
public ParameterTable createOutputParameters()
```
    Returns a table listing the output parameters of this algorithm (usually just labels used to obtain output image names later).
    
    Specified by:
    
    createOutputParameters in interface ActionDiscovery
    
    Returns:
    
    A parameter table listing the outputs of this algorithm.
  - getOutputImageName
```
public java.lang.String getOutputImageName(java.lang.String imageParamName)
```
    Returns the name of an image output by this algorithm, the image returned depends on the parameter label given (which can be used to retrieve the image object from the image registry).
    
    Specified by:
    
    getOutputImageName in interface ActionDiscovery
    
    Parameters:
    
    imageParamName - The output image parameter label for which to get the image name.
    
    Returns:
    
    The image name of the requested output image parameter label.
  - isActionComplete
```
public boolean isActionComplete()
```
    Returns whether the action has successfully completed its execution.
    
    Specified by:
    
    isActionComplete in interface ActionDiscovery
    
    Returns:
    
    True, if the action is complete. False, if the action failed or is still running.

Class JDialogBrainSurfaceExtractor

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.JDialogScriptableBase

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.JDialogScriptableBase

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

Methods inherited from interface gov.nih.mipav.view.dialogs.ActionDiscovery

Field Detail

serialVersionUID

closeKernelPixels

closeIterations

closeKernelSize

closeKernelSizeTF

edgeKernelSize

edgeKernelSizeTF

erosion25D

erosion25DCB

erosionIterations

erosionIterationsTF

extractBrainAlgo

extractPaint

extractPaintCheckBox

fillHoles

fillHolesCB

filterGaussianStdDev

filterGaussianStdDevTF

filterIterations

filterIterationsTF

image

imageCopy

imgName

resultImage

showIntermediateImages

showIntermediateImagesCB

userInterface

useSeparable

useSeparableCB

Constructor Detail

JDialogBrainSurfaceExtractor

JDialogBrainSurfaceExtractor

Method Detail

actionPerformed

algorithmPerformed

callAlgorithm

setEdgeKernelSize

setFillHoles

setExtractPaint

setErosionIterations

setFilterGaussianStdDev

setFilterIterations

setShowIntermediateImages

setUseSeparable

doPostAlgorithmActions

setGUIFromParams

storeParamsFromGUI

init

setVariables

getActionMetadata

createInputParameters

createOutputParameters