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.JDialogMSFuzzyCMeans

All Implemented Interfaces:

AlgorithmInterface, ScriptableActionInterface, 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.event.ListSelectionListener, javax.swing.RootPaneContainer, javax.swing.WindowConstants
```
public class JDialogMSFuzzyCMeans
extends JDialogScriptableBase
implements AlgorithmInterface, javax.swing.event.ListSelectionListener
```
Dialog to get user input, then call the algorithm.

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 AlgorithmMSpectralFuzzyCMeans`	`afcmAlgo`	DOCUMENT ME!
`private float[]`	`centroids`	DOCUMENT ME!
`private boolean`	`changeRemoveIndex`	DOCUMENT ME!
`private javax.swing.JButton`	`chooserButton`	DOCUMENT ME!
`private JPanelColorChannels`	`colorPanel`	DOCUMENT ME!
`private boolean`	`cropBackground`	DOCUMENT ME!
`private javax.swing.JCheckBox`	`cropCheckbox`	DOCUMENT ME!
`private int[]`	`destExtents`	DOCUMENT ME!
`private float`	`endTol`	DOCUMENT ME!
`private javax.swing.JRadioButton`	`fuzzyOnly`	DOCUMENT ME!
`private javax.swing.JRadioButton`	`hardFuzzyBoth`	DOCUMENT ME!
`private javax.swing.JRadioButton`	`hardOnly`	DOCUMENT ME!
`private javax.swing.JList`	`imageList`	DOCUMENT ME!
`private javax.swing.JPanel`	`imagePanel`	DOCUMENT ME!
`private javax.swing.ButtonGroup`	`imageVOIGroup`	DOCUMENT ME!
`private javax.swing.JPanel`	`imageVOIPanel`	DOCUMENT ME!
`private javax.swing.JLabel`	`labelEndTol`	DOCUMENT ME!
`private javax.swing.JLabel`	`labelExpo`	DOCUMENT ME!
`private javax.swing.JLabel`	`labelMaxIter`	DOCUMENT ME!
`private javax.swing.JLabel`	`labelNClasses`	DOCUMENT ME!
`private int`	`maxIter`	DOCUMENT ME!
`private javax.swing.DefaultListModel`	`model`	DOCUMENT ME!
`private int`	`nClasses`	DOCUMENT ME!
`private int`	`nPyramid`	DOCUMENT ME!
`private int`	`oneJacobiIter`	DOCUMENT ME!
`private float`	`oneSmooth`	DOCUMENT ME!
`private boolean`	`outputGainField`	private JCheckBox calcGainFieldCheckbox;.
`private javax.swing.JPanel`	`paramPanel`	DOCUMENT ME!
`private int`	`presentNumber`	DOCUMENT ME!
`private float`	`q`	DOCUMENT ME!
`private boolean`	`regionFlag`	DOCUMENT ME!
`private javax.swing.JButton`	`removeButton`	DOCUMENT ME!
`private int`	`removeIndex`	DOCUMENT ME!
`private ModelImage[]`	`resultImage`	DOCUMENT ME!
`private int`	`resultNumber`	DOCUMENT ME!
`private int`	`segmentation`	DOCUMENT ME!
`private javax.swing.ButtonGroup`	`segmentationGroup`	DOCUMENT ME!
`private javax.swing.JPanel`	`segmentationPanel`	DOCUMENT ME!
`private static long`	`serialVersionUID`	Use serialVersionUID for interoperability.
`private ModelImage[]`	`srcImage`	DOCUMENT ME!
`private int`	`srcNumber`	DOCUMENT ME!
`private ModelImage[]`	`tempImage`	DOCUMENT ME!
`private javax.swing.JTextField`	`textEndTol`	DOCUMENT ME!
`private javax.swing.JTextField`	`textExpo`	DOCUMENT ME!
`private javax.swing.JTextField`	`textMaxIter`	DOCUMENT ME!
`private javax.swing.JTextField`	`textNClasses`	DOCUMENT ME!
`private float[]`	`threshold`	DOCUMENT ME!
`private int`	`twoJacobiIter`	DOCUMENT ME!
`private float`	`twoSmooth`	DOCUMENT ME!
`private ViewUserInterface`	`userInterface`	DOCUMENT ME!
`private javax.swing.JRadioButton`	`VOIRegions`	DOCUMENT ME!
`private javax.swing.JRadioButton`	`wholeImage`	DOCUMENT ME!

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
`JDialogMSFuzzyCMeans()`	Empty constructor needed for dynamic instantiation (used during scripting).
`JDialogMSFuzzyCMeans(java.awt.Frame theParentFrame, ModelImage im)`	Creates a new JDialogMSFuzzyCMeans object.

Method Summary

All Methods Instance Methods Concrete Methods
Modifier and Type	Method	Description
`void`	`actionPerformed(java.awt.event.ActionEvent event)`	Closes dialog box when the OK button is pressed and calls the algorithm.
`void`	`algorithmPerformed(AlgorithmBase algorithm)`	This method is required if the AlgorithmPerformed interface is implemented.
`protected void`	`callAlgorithm()`	Once all the necessary variables are set, call the Fuzzy C Means algorithm based on what type of image this is and whether or not there is a separate destination image.
`private boolean`	`checkImage(ModelImage testImage)`	Checks the color and dimensionality of the new image vs. the original source image.
`protected void`	`doPostAlgorithmActions()`	Store the result image in the script runner's image table now that the action execution is finished.
`private boolean`	`getCentroidsThreshold()`	Gets the minimum and maximum of each image and initializes the centroids dialog appropriately.
`private javax.swing.filechooser.FileFilter`	`getFileFilter(javax.swing.JFileChooser chooser, int index)`	A private helper function to get the current used FileFilter from JFileChooser.
`ModelImage[]`	`getResultImage()`	Accessor that returns the image.
`private void`	`init()`	Sets up the GUI (panels, buttons, etc) and displays it on the screen.
`private ModelImage`	`open()`	Open an image based on the suffix of the file.
`void`	`setCentroids(float[] centroids)`	Accessor that sets the centroids.
`void`	`setCrop(boolean flag)`	Accessor that sets the crop background flag.
`void`	`setEndTol(float scale)`	Accessor that sets the end tol.
`protected void`	`setGUIFromParams()`	Set the dialog GUI using the script parameters while running this algorithm as part of a script.
`void`	`setMaxIter(int max)`	Accessor that sets the max iterations.
`void`	`setNClasses(int classes)`	Accessor that sets the number of classes.
`void`	`setQ(float scale)`	Accessor that sets the q variable.
`void`	`setRegionFlag(boolean flag)`	Accessor that sets the region flag.
`void`	`setSegmentationType(int type)`	Accessor that sets the segmentation type (BOTH_FUZZY_HARD, FUZZY, or HARD).
`void`	`setSourceImage(ModelImage[] images)`	Accessor that sets the array of source images.
`void`	`setThreshold(float[] threshold)`	Accessor that sets the threshold.
`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.
`void`	`valueChanged(javax.swing.event.ListSelectionEvent evt)`	Sets the remove index based on the selected index in the list.

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

- Field Detail
  - serialVersionUID
```
private static final long serialVersionUID
```
    Use serialVersionUID for interoperability.
    
    See Also:
    
    Constant Field Values
  - afcmAlgo
```
private AlgorithmMSpectralFuzzyCMeans afcmAlgo
```
    DOCUMENT ME!
  - centroids
```
private float[] centroids
```
    DOCUMENT ME!
  - changeRemoveIndex
```
private boolean changeRemoveIndex
```
    DOCUMENT ME!
  - chooserButton
```
private javax.swing.JButton chooserButton
```
    DOCUMENT ME!
  - colorPanel
```
private JPanelColorChannels colorPanel
```
    DOCUMENT ME!
  - cropBackground
```
private boolean cropBackground
```
    DOCUMENT ME!
  - cropCheckbox
```
private javax.swing.JCheckBox cropCheckbox
```
    DOCUMENT ME!
  - destExtents
```
private int[] destExtents
```
    DOCUMENT ME!
  - endTol
```
private float endTol
```
    DOCUMENT ME!
  - fuzzyOnly
```
private javax.swing.JRadioButton fuzzyOnly
```
    DOCUMENT ME!
  - hardFuzzyBoth
```
private javax.swing.JRadioButton hardFuzzyBoth
```
    DOCUMENT ME!
  - hardOnly
```
private javax.swing.JRadioButton hardOnly
```
    DOCUMENT ME!
  - imageList
```
private javax.swing.JList imageList
```
    DOCUMENT ME!
  - imagePanel
```
private javax.swing.JPanel imagePanel
```
    DOCUMENT ME!
  - imageVOIGroup
```
private javax.swing.ButtonGroup imageVOIGroup
```
    DOCUMENT ME!
  - imageVOIPanel
```
private javax.swing.JPanel imageVOIPanel
```
    DOCUMENT ME!
  - labelEndTol
```
private javax.swing.JLabel labelEndTol
```
    DOCUMENT ME!
  - labelExpo
```
private javax.swing.JLabel labelExpo
```
    DOCUMENT ME!
  - labelMaxIter
```
private javax.swing.JLabel labelMaxIter
```
    DOCUMENT ME!
  - labelNClasses
```
private javax.swing.JLabel labelNClasses
```
    DOCUMENT ME!
  - maxIter
```
private int maxIter
```
    DOCUMENT ME!
  - model
```
private javax.swing.DefaultListModel model
```
    DOCUMENT ME!
  - nClasses
```
private int nClasses
```
    DOCUMENT ME!
  - nPyramid
```
private int nPyramid
```
    DOCUMENT ME!
  - oneJacobiIter
```
private int oneJacobiIter
```
    DOCUMENT ME!
  - oneSmooth
```
private float oneSmooth
```
    DOCUMENT ME!
  - outputGainField
```
private boolean outputGainField
```
    private JCheckBox calcGainFieldCheckbox;.
  - paramPanel
```
private javax.swing.JPanel paramPanel
```
    DOCUMENT ME!
  - presentNumber
```
private int presentNumber
```
    DOCUMENT ME!
  - q
```
private float q
```
    DOCUMENT ME!
  - regionFlag
```
private boolean regionFlag
```
    DOCUMENT ME!
  - removeButton
```
private javax.swing.JButton removeButton
```
    DOCUMENT ME!
  - removeIndex
```
private int removeIndex
```
    DOCUMENT ME!
  - resultImage
```
private ModelImage[] resultImage
```
    DOCUMENT ME!
  - resultNumber
```
private int resultNumber
```
    DOCUMENT ME!
  - segmentation
```
private int segmentation
```
    DOCUMENT ME!
  - segmentationGroup
```
private javax.swing.ButtonGroup segmentationGroup
```
    DOCUMENT ME!
  - segmentationPanel
```
private javax.swing.JPanel segmentationPanel
```
    DOCUMENT ME!
  - srcImage
```
private ModelImage[] srcImage
```
    DOCUMENT ME!
  - srcNumber
```
private int srcNumber
```
    DOCUMENT ME!
  - tempImage
```
private ModelImage[] tempImage
```
    DOCUMENT ME!
  - textEndTol
```
private javax.swing.JTextField textEndTol
```
    DOCUMENT ME!
  - textExpo
```
private javax.swing.JTextField textExpo
```
    DOCUMENT ME!
  - textMaxIter
```
private javax.swing.JTextField textMaxIter
```
    DOCUMENT ME!
  - textNClasses
```
private javax.swing.JTextField textNClasses
```
    DOCUMENT ME!
  - threshold
```
private float[] threshold
```
    DOCUMENT ME!
  - twoJacobiIter
```
private int twoJacobiIter
```
    DOCUMENT ME!
  - twoSmooth
```
private float twoSmooth
```
    DOCUMENT ME!
  - userInterface
```
private ViewUserInterface userInterface
```
    DOCUMENT ME!
  - VOIRegions
```
private javax.swing.JRadioButton VOIRegions
```
    DOCUMENT ME!
  - wholeImage
```
private javax.swing.JRadioButton wholeImage
```
    DOCUMENT ME!
- Constructor Detail
  - JDialogMSFuzzyCMeans
```
public JDialogMSFuzzyCMeans()
```
    Empty constructor needed for dynamic instantiation (used during scripting).
  - JDialogMSFuzzyCMeans
```
public JDialogMSFuzzyCMeans(java.awt.Frame theParentFrame,
                            ModelImage im)
```
    Creates a new JDialogMSFuzzyCMeans object.
    
    Parameters:
    
    theParentFrame - parent frame
    
    im - source image
- Method Detail
  - actionPerformed
```
public void actionPerformed(java.awt.event.ActionEvent event)
```
    Closes dialog box when the OK button is pressed and calls the algorithm.
    
    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 be display the result image and/or clean up.
    
    Specified by:
    
    algorithmPerformed in interface AlgorithmInterface
    
    Parameters:
    
    algorithm - Algorithm that caused the event.
  - getResultImage
```
public ModelImage[] getResultImage()
```
    Accessor that returns the image.
    
    Returns:
    
    The result image.
  - setCentroids
```
public void setCentroids(float[] centroids)
```
    Accessor that sets the centroids.
    
    Parameters:
    
    centroids - Value to set centroids to.
  - setCrop
```
public void setCrop(boolean flag)
```
    Accessor that sets the crop background flag.
    
    Parameters:
    
    flag - true indicates crop the background, false otherwise.
  - setEndTol
```
public void setEndTol(float scale)
```
    Accessor that sets the end tol.
    
    Parameters:
    
    scale - Value to set end tol to.
  - setMaxIter
```
public void setMaxIter(int max)
```
    Accessor that sets the max iterations.
    
    Parameters:
    
    max - The max iterations
  - setNClasses
```
public void setNClasses(int classes)
```
    Accessor that sets the number of classes.
    
    Parameters:
    
    classes - The number of classes.
  - setQ
```
public void setQ(float scale)
```
    Accessor that sets the q variable.
    
    Parameters:
    
    scale - Value to set q variable to.
  - setRegionFlag
```
public void setRegionFlag(boolean flag)
```
    Accessor that sets the region flag.
    
    Parameters:
    
    flag - true indicates the whole image is blurred, false indicates a region.
  - setSegmentationType
```
public void setSegmentationType(int type)
```
    Accessor that sets the segmentation type (BOTH_FUZZY_HARD, FUZZY, or HARD).
    
    Parameters:
    
    type - The segmentation type.
  - setSourceImage
```
public void setSourceImage(ModelImage[] images)
```
    Accessor that sets the array of source images.
    
    Parameters:
    
    images - new source images.
  - setThreshold
```
public void setThreshold(float[] threshold)
```
    Accessor that sets the threshold.
    
    Parameters:
    
    threshold - Value to set threshold to.
  - valueChanged
```
public void valueChanged(javax.swing.event.ListSelectionEvent evt)
```
    Sets the remove index based on the selected index in the list.
    
    Specified by:
    
    valueChanged in interface javax.swing.event.ListSelectionListener
    
    Parameters:
    
    evt - Event that caused this method to fire.
  - callAlgorithm
```
protected void callAlgorithm()
```
    Once all the necessary variables are set, call the Fuzzy C Means algorithm based on what type of image this is and whether or not there is a separate destination image.
    
    Specified by:
    
    callAlgorithm in class JDialogScriptableBase
  - 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.
  - checkImage
```
private boolean checkImage(ModelImage testImage)
```
    Checks the color and dimensionality of the new image vs. the original source image. All new images should have the same color modality as the source and be of the same dimensions.
    
    Parameters:
    
    testImage - DOCUMENT ME!
    
    Returns:
    
    Flag indicating if the image checks out.
  - getCentroidsThreshold
```
private boolean getCentroidsThreshold()
```
    Gets the minimum and maximum of each image and initializes the centroids dialog appropriately.
    
    Returns:
    
    Flag indicating a successful get.
  - getFileFilter
```
private javax.swing.filechooser.FileFilter getFileFilter(javax.swing.JFileChooser chooser,
                                                         int index)
```
    A private helper function to get the current used FileFilter from JFileChooser.
    
    Parameters:
    
    chooser - DOCUMENT ME!
    
    index - the index of the choosable file filters.
    
    Returns:
    
    the current used file filter.
  - init
```
private void init()
```
    Sets up the GUI (panels, buttons, etc) and displays it on the screen.
  - open
```
private ModelImage open()
```
    Open an image based on the suffix of the file.
    
    Returns:
    
    The image.
  - 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.

Class JDialogMSFuzzyCMeans

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

Field Detail

serialVersionUID

afcmAlgo

centroids

changeRemoveIndex

chooserButton

colorPanel

cropBackground

cropCheckbox

destExtents

endTol

fuzzyOnly

hardFuzzyBoth

hardOnly

imageList

imagePanel

imageVOIGroup

imageVOIPanel

labelEndTol

labelExpo

labelMaxIter

labelNClasses

maxIter

model

nClasses

nPyramid

oneJacobiIter

oneSmooth

outputGainField

paramPanel

presentNumber

q

regionFlag

removeButton

removeIndex

resultImage

resultNumber

segmentation

segmentationGroup

segmentationPanel

srcImage

srcNumber

tempImage

textEndTol

textExpo

textMaxIter

textNClasses

threshold

twoJacobiIter

twoSmooth

userInterface

VOIRegions

wholeImage

Constructor Detail