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.JDialogVOIStatistics

All Implemented Interfaces:

AlgorithmInterface, ScriptableActionInterface, VOIVectorListener, VOIStatisticList, 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 JDialogVOIStatistics
extends JDialogScriptableBase
implements AlgorithmInterface, VOIStatisticList, VOIVectorListener
```
Dialog for calculating statistics of a (set of) Volumes of Interest. User selects a Volume of Interest (or more than one) to act on, selects the statistics from a selectable checklist panel. The User selects "Calculate"; the output from the statistics is reported in a "log-panel" and may be sent to a file.
$Logfile: /mipav/src/gov/nih/mipav/view/dialogs/JDialogVOIStatistics.java $

See Also:

Serialized Form

Nested Class Summary

Nested Classes
Modifier and Type	Class	Description
`class`	`JDialogVOIStatistics.JPanelAddRemoveVOI`	controllas the lists between left and right side.
`class`	`JDialogVOIStatistics.JPanelStatisticFileFormatOptions`	File-format options panel to select output format for the display of the statistics output file.
`class`	`JDialogVOIStatistics.JPanelStatisticsOptions`	Panel holding all statistics options and allowing the user-selection.
`class`	`JDialogVOIStatistics.VOIHighlighter`	An active listener for VOIEvents and ListSelectionEvents, this class will ensure the selected state of the VOI and its name in a dialog's list is the same.

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 int`	`activeVolume`
`private JDialogVOIStatistics.JPanelAddRemoveVOI`	`addremove`	Panel to push/pull VOIs from full list to selectable list.
`private static int`	`APPEND`	File handler output mode - append.
`protected AlgorithmVOIProps`	`calculator`	DOCUMENT ME!
`protected JPanelStatisticsList`	`checkBoxPanel`	Panel holding statistics options.
`protected boolean[]`	`checkList`	boolean array mirroring checkbox panel's selection.
`private boolean`	`doAllVolumes`
`private boolean`	`doForce`	force precision to display at maximum.
`protected javax.swing.JTabbedPane`	`everything`	Tabbed pane that holds all components.
`private JPanelFileSelection`	`fileSelectorPanel`	Panel to select files.
`private JDialogVOIStatistics.VOIHighlighter`	`highlighter`	Operator to provide listener access... could be done by /this/
`protected ModelImage`	`image`	Global image reference to the currently active image during script running and recording.
`private int`	`initialActiveVolume`
`protected static int`	`LOG_TAB`	Logging Tab.
`private java.lang.StringBuffer`	`logFileText`	The text of the log process to be written to file.
`protected ViewTableModel`	`logModel`	Model where data is stored for the table.
`private javax.swing.JTable`	`logTable`	Table holding log of statistics calculated.
`private boolean`	`noisyProcess`	Flag where `true` means notifying the user of stupid errors.
`protected JDialogVOIStatistics.JPanelStatisticsOptions`	`outputOptionsPanel`	Panel holding statistics output options.
`private static int`	`OVERWRITE`	File handler output mode - overwriteBox.
`private javax.swing.JCheckBoxMenuItem`	`overwriteBox`	Check box item indicating if we're to always overwriteBox the statistics file.
`private int`	`precision`	Number of digits after decimal place to allow.
`private ViewVOIVector`	`processList`
`protected int`	`processType`	DOCUMENT ME!
`private JPanelPixelExclusionSelector.RangeType`	`r`
`private float`	`rangeMaximum`	DOCUMENT ME!
`private float`	`rangeMaximumB`
`private float`	`rangeMaximumG`
`private float`	`rangeMaximumR`
`private float`	`rangeMinimum`	DOCUMENT ME!
`private float`	`rangeMinimumB`
`private float`	`rangeMinimumG`
`private float`	`rangeMinimumR`
`private JPanelPixelExclusionSelector.RangeType`	`scriptRange`	When running as a script, holds the pixel exclusion range.
`protected javax.swing.JList`	`selectedList`	List of selected VOIs.
`private static long`	`serialVersionUID`	Use serialVersionUID for interoperability.
`protected boolean`	`showTotals`	DOCUMENT ME!
`protected static int`	`STAT_TAB`	Statistics Tab.
`private AlgorithmSubset`	`subsetAlgo`
`private ModelImage`	`subsetImage`
`private java.io.File`	`tableDestination`	Log file destination.
`private int`	`tableDestinationUsage`	Indicates options for OVERWRITE, APPEND for the xlat file.
`private int`	`tDim`
`protected javax.swing.JToolBar`	`toolBar`	Toolbar.
`protected ViewUserInterface`	`userInterface`	Icon and log access.
`protected static int`	`VOI_TAB`	VOI Tab.
`private javax.swing.JList`	`volumesList`	List of available VOIs.
`protected int`	`xUnits`	The units printed to the logModel, set in createNewLogile
`protected int`	`yUnits`	The units printed to the logModel, set in createNewLogile
`protected int`	`zUnits`	The units printed to the logModel, set in createNewLogile

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 gov.nih.mipav.model.structures.VOIStatisticList
areaDescription, asymmetryIndexDescription, avgIntensity, axisDescription, circularityDescription, deviationDescription, eccentricityDescription, fractalDimensionBoxCountDescription, fractalDimensionEuclideanDistanceDescription, geometricCenterDescription, invariantMoment1Description, invariantMoment2Description, invariantMoment3Description, invariantMoment4Description, invariantMoment5Description, invariantMoment6Description, invariantMoment7Description, kurtosisDescription, largestDistanceDescription, largestSliceDistanceDescription, majorAxisDescription, massCenterDescription, maxIntensity, maxWidthDescription, meanCurvatureDescription, meanNegativeCurvatureDescription, median, minIntensity, minorAxisDescription, mode, modeCount, numberOfIndentationsCurvatureDescription, numberOfIndentationsHullDescription, numberOfStatistics, perimeterDescription, quantityDescription, skewnessDescription, solidityDescription, statisticDescription, stdDevCurvatureDescription, sumIntensities, surfaceAreaDescription, volumeDescription

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
`JDialogVOIStatistics()`	Empty constructor needed for dynamic instantiation.
`JDialogVOIStatistics(ModelImage srcImage, VOIVector voiList)`	builds and packs the frame. does not set it visible.
`JDialogVOIStatistics(VOIVector voiList)`	builds and packs the frame. does not set it visible.

Method Summary

All Methods Instance Methods Concrete Methods
Modifier and Type	Method	Description
`void`	`actionPerformed(java.awt.event.ActionEvent ae)`	when a button is clicked.
`void`	`addedVOI(VOIVectorEvent voiEvent)`	resets the volumes list to the current VOIVector. adds the highlighter to the new VOI.
`void`	`algorithmPerformed(AlgorithmBase event)`	the standard thread-done event for `AlgorithmBase.`
`private void`	`anotherCall()`
`protected void`	`buildCheckBoxPanel()`
`protected void`	`buildDialog(VOIVector voiList)`	Builds main dialog.
`protected javax.swing.JScrollPane`	`buildLogPanel()`	creates a panel for the output log.
`protected javax.swing.JMenuBar`	`buildMenuEntries()`	Builds a small menu with "Clear log" and "Overwrite" options.
`protected javax.swing.JPanel`	`buildOKCancelPanel()`	creates the panel which consists of the OKAY button and the Cancel button.
`private javax.swing.JPanel`	`buildSelectedListing()`	creates the visual display in which to list all selected directories in the directory tree.
`private javax.swing.JPanel`	`buildSourceListingPanel(VOIVector VOIlist)`	Creates the panel holding the directory tree.
`private javax.swing.JPanel`	`buildSourcePanel(VOIVector VOIlist)`	creates the source panel which consists of the directory line, the browse button, and a check box approving the anonymize in sub-directories.
`protected void`	`buildToolBar()`	Build the toolbar control.
`protected javax.swing.JPanel`	`buildVOIPanel(VOIVector VOIlist)`	creates the source panel for the VOI tab which consists of the directory line, the browse button, and a check box approving the anonymize in sub-directories.
`protected void`	`callAlgorithm()`	Once all the necessary variables are set, call the VOI Props algorithm to run the statistic calculation.
`protected void`	`cleanUpAndDispose()`	Clean up some things done by the dialog which may affect other parts of MIPAV.
`protected void`	`createNewLogModel()`	This method resets the logModel in preparation for writing new statistics values
`protected void`	`doPostAlgorithmActions()`	Used to perform actions after the execution of the algorithm is completed (e.g., put the result image in the image table).
`private boolean`	`isStatisticSelectionOkay()`	checks to see if the checklist has had any selections made to it.
`private boolean`	`isTableDestinationOkay()`	Locates the translation/key-file destination directory.
`void`	`refreshVOIList(VOIVector VOIlist)`	Refreshes the list of available and selected VOIs.
`void`	`removedVOI(VOIVectorEvent voiEvent)`	resets the volumes list to the current VOIVector. removes the highlighter from the removed VOI.
`protected void`	`setGUIFromParams()`	Set the dialog GUI using the script parameters while running this algorithm as part of a script.
`private java.io.File`	`setupNew(java.io.File selected)`	makes the submitted directory as given by the inputted File, or the text as given in the given given textField.
`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.
`protected void`	`updateDialog()`	Method for updating the GUI after the algorithm has completed, should not be called when scripting.
`protected void`	`updateDialogRow(VOI voi, java.util.Vector<VOIBase>[] contours, VOIStatisticalProperties properties, javax.swing.ListModel list, int i, java.lang.String[] rowData, java.lang.String[] totalData)`	Writes the statistic data for contours
`protected java.lang.String[]`	`updateRowStatistics(VOI voi, VOIStatisticalProperties properties, java.lang.String[] rowData, java.lang.String[] totalData, java.lang.String end, int count)`	Writes general statistics data for any VOI structure given a valid "end" modifier to specify the property being fetched.
`protected void`	`updateStatLog()`	Method for updating the table after the algorithm has completed.
`void`	`vectorSelected(VOIVectorEvent voiEvent)`	un-implemented.
`protected void`	`writeLogHeader()`	Writes the column titles of selected statistics calculations to the logModel.
`protected java.lang.StringBuffer`	`writeLogModelToString()`	Converts the current logModel into either a tab-delimited text file or an XML file.
`protected void`	`writeStatisticFile()`	Writes out the statistics file based on the current logModel

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
  - VOI_TAB
```
protected static final int VOI_TAB
```
    VOI Tab.
    
    See Also:
    
    Constant Field Values
  - STAT_TAB
```
protected static final int STAT_TAB
```
    Statistics Tab.
    
    See Also:
    
    Constant Field Values
  - LOG_TAB
```
protected static final int LOG_TAB
```
    Logging Tab.
    
    See Also:
    
    Constant Field Values
  - APPEND
```
private static final int APPEND
```
    File handler output mode - append.
    
    See Also:
    
    Constant Field Values
  - OVERWRITE
```
private static final int OVERWRITE
```
    File handler output mode - overwriteBox.
    
    See Also:
    
    Constant Field Values
  - addremove
```
private JDialogVOIStatistics.JPanelAddRemoveVOI addremove
```
    Panel to push/pull VOIs from full list to selectable list.
  - calculator
```
protected AlgorithmVOIProps calculator
```
    DOCUMENT ME!
  - checkBoxPanel
```
protected JPanelStatisticsList checkBoxPanel
```
    Panel holding statistics options.
  - checkList
```
protected boolean[] checkList
```
    boolean array mirroring checkbox panel's selection.
  - doForce
```
private boolean doForce
```
    force precision to display at maximum.
  - everything
```
protected javax.swing.JTabbedPane everything
```
    Tabbed pane that holds all components.
  - fileSelectorPanel
```
private JPanelFileSelection fileSelectorPanel
```
    Panel to select files.
  - highlighter
```
private JDialogVOIStatistics.VOIHighlighter highlighter
```
    Operator to provide listener access... could be done by /this/
  - image
```
protected ModelImage image
```
    Global image reference to the currently active image during script running and recording.
  - logFileText
```
private java.lang.StringBuffer logFileText
```
    The text of the log process to be written to file.
  - logModel
```
protected ViewTableModel logModel
```
    Model where data is stored for the table.
  - logTable
```
private javax.swing.JTable logTable
```
    Table holding log of statistics calculated.
  - noisyProcess
```
private final boolean noisyProcess
```
    Flag where true means notifying the user of stupid errors.
    
    See Also:
    
    Constant Field Values
  - outputOptionsPanel
```
protected JDialogVOIStatistics.JPanelStatisticsOptions outputOptionsPanel
```
    Panel holding statistics output options.
  - overwriteBox
```
private javax.swing.JCheckBoxMenuItem overwriteBox
```
    Check box item indicating if we're to always overwriteBox the statistics file.
  - precision
```
private int precision
```
    Number of digits after decimal place to allow.
  - processType
```
protected int processType
```
    DOCUMENT ME!
  - activeVolume
```
private int activeVolume
```
  - initialActiveVolume
```
private int initialActiveVolume
```
  - tDim
```
private int tDim
```
  - subsetAlgo
```
private AlgorithmSubset subsetAlgo
```
  - subsetImage
```
private ModelImage subsetImage
```
  - doAllVolumes
```
private boolean doAllVolumes
```
  - processList
```
private ViewVOIVector processList
```
  - r
```
private JPanelPixelExclusionSelector.RangeType r
```
  - rangeMaximum
```
private float rangeMaximum
```
    DOCUMENT ME!
  - rangeMinimum
```
private float rangeMinimum
```
    DOCUMENT ME!
  - rangeMaximumR
```
private float rangeMaximumR
```
  - rangeMinimumR
```
private float rangeMinimumR
```
  - rangeMaximumG
```
private float rangeMaximumG
```
  - rangeMinimumG
```
private float rangeMinimumG
```
  - rangeMaximumB
```
private float rangeMaximumB
```
  - rangeMinimumB
```
private float rangeMinimumB
```
  - selectedList
```
protected javax.swing.JList selectedList
```
    List of selected VOIs.
  - showTotals
```
protected boolean showTotals
```
    DOCUMENT ME!
  - tableDestination
```
private java.io.File tableDestination
```
    Log file destination.
  - tableDestinationUsage
```
private int tableDestinationUsage
```
    Indicates options for OVERWRITE, APPEND for the xlat file.
  - toolBar
```
protected javax.swing.JToolBar toolBar
```
    Toolbar.
  - userInterface
```
protected ViewUserInterface userInterface
```
    Icon and log access.
  - volumesList
```
private final javax.swing.JList volumesList
```
    List of available VOIs.
  - xUnits
```
protected int xUnits
```
    The units printed to the logModel, set in createNewLogile
  - yUnits
```
protected int yUnits
```
    The units printed to the logModel, set in createNewLogile
  - zUnits
```
protected int zUnits
```
    The units printed to the logModel, set in createNewLogile
  - scriptRange
```
private JPanelPixelExclusionSelector.RangeType scriptRange
```
    When running as a script, holds the pixel exclusion range.
- Constructor Detail
  - JDialogVOIStatistics
```
public JDialogVOIStatistics()
```
    Empty constructor needed for dynamic instantiation.
  - JDialogVOIStatistics
```
public JDialogVOIStatistics(VOIVector voiList)
```
    builds and packs the frame. does not set it visible.
    install the panels of source directory, destination directory, the checkbox for approving the translation-table file and the panel containing the ok and cancel buttons. Installs the checkbox panel.
    
    Parameters:
    
    voiList - DOCUMENT ME!
  - JDialogVOIStatistics
```
public JDialogVOIStatistics(ModelImage srcImage,
                            VOIVector voiList)
```
    builds and packs the frame. does not set it visible.
    install the panels of source directory, destination directory, the checkbox for approving the translation-table file and the panel containing the ok and cancel buttons. Installs the checkbox panel.
    
    Parameters:
    
    srcImage - input image
    
    voiList - DOCUMENT ME!
- Method Detail
  - actionPerformed
```
public void actionPerformed(java.awt.event.ActionEvent ae)
```
    when a button is clicked.
    
    Specified by:
    
    actionPerformed in interface java.awt.event.ActionListener
    
    Overrides:
    
    actionPerformed in class JDialogBase
    
    Parameters:
    
    ae - DOCUMENT ME!
  - addedVOI
```
public void addedVOI(VOIVectorEvent voiEvent)
```
    resets the volumes list to the current VOIVector. adds the highlighter to the new VOI.
    
    Specified by:
    
    addedVOI in interface VOIVectorListener
    
    Parameters:
    
    voiEvent - DOCUMENT ME!
  - algorithmPerformed
```
public void algorithmPerformed(AlgorithmBase event)
```
    the standard thread-done event for AlgorithmBase.
    
    Specified by:
    
    algorithmPerformed in interface AlgorithmInterface
    
    Parameters:
    
    event - the event
  - anotherCall
```
private void anotherCall()
```
  - refreshVOIList
```
public void refreshVOIList(VOIVector VOIlist)
```
    Refreshes the list of available and selected VOIs.
    
    Parameters:
    
    VOIlist - imageActive's current VOIVector
  - removedVOI
```
public void removedVOI(VOIVectorEvent voiEvent)
```
    resets the volumes list to the current VOIVector. removes the highlighter from the removed VOI.
    
    Specified by:
    
    removedVOI in interface VOIVectorListener
    
    Parameters:
    
    voiEvent - DOCUMENT ME!
  - vectorSelected
```
public void vectorSelected(VOIVectorEvent voiEvent)
```
    un-implemented.
    
    Specified by:
    
    vectorSelected in interface VOIVectorListener
    
    Parameters:
    
    voiEvent - DOCUMENT ME!
  - callAlgorithm
```
protected void callAlgorithm()
```
    Once all the necessary variables are set, call the VOI Props algorithm to run the statistic calculation.
    
    Specified by:
    
    callAlgorithm in class JDialogScriptableBase
  - cleanUpAndDispose
```
protected void cleanUpAndDispose()
```
    Clean up some things done by the dialog which may affect other parts of MIPAV.
  - doPostAlgorithmActions
```
protected void doPostAlgorithmActions()
```
    Used to perform actions after the execution of the algorithm is completed (e.g., put the result image in the image table). Defaults to no action, override to actually have it do something.
    
    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.
  - buildCheckBoxPanel
```
protected void buildCheckBoxPanel()
```
  - buildDialog
```
protected void buildDialog(VOIVector voiList)
```
    Builds main dialog.
  - buildLogPanel
```
protected javax.swing.JScrollPane buildLogPanel()
```
    creates a panel for the output log.
    
    Returns:
    
    DOCUMENT ME!
  - buildMenuEntries
```
protected javax.swing.JMenuBar buildMenuEntries()
```
    Builds a small menu with "Clear log" and "Overwrite" options.
    
    Returns:
    
    DOCUMENT ME!
  - buildOKCancelPanel
```
protected javax.swing.JPanel buildOKCancelPanel()
```
    creates the panel which consists of the OKAY button and the Cancel button.
    
    Returns:
    
    DOCUMENT ME!
  - buildSelectedListing
```
private javax.swing.JPanel buildSelectedListing()
```
    creates the visual display in which to list all selected directories in the directory tree. The panel is 240 pixels wide though that is supposed to be the minimum size
    
    Returns:
    
    the panel which is to hold the list of selected items
  - buildSourceListingPanel
```
private javax.swing.JPanel buildSourceListingPanel(VOIVector VOIlist)
```
    Creates the panel holding the directory tree.
    
    Parameters:
    
    VOIlist - DOCUMENT ME!
    
    Returns:
    
    Panel.
  - buildSourcePanel
```
private javax.swing.JPanel buildSourcePanel(VOIVector VOIlist)
```
    creates the source panel which consists of the directory line, the browse button, and a check box approving the anonymize in sub-directories.
    
    Parameters:
    
    VOIlist - DOCUMENT ME!
    
    Returns:
    
    DOCUMENT ME!
  - buildToolBar
```
protected void buildToolBar()
```
    Build the toolbar control.
  - buildVOIPanel
```
protected javax.swing.JPanel buildVOIPanel(VOIVector VOIlist)
```
    creates the source panel for the VOI tab which consists of the directory line, the browse button, and a check box approving the anonymize in sub-directories. Also includes the file-format selection for the output file.
    
    Parameters:
    
    VOIlist - DOCUMENT ME!
    
    Returns:
    
    DOCUMENT ME!
  - createNewLogModel
```
protected void createNewLogModel()
```
    This method resets the logModel in preparation for writing new statistics values
  - isStatisticSelectionOkay
```
private boolean isStatisticSelectionOkay()
```
    checks to see if the checklist has had any selections made to it. If it hasn't, then the "Statistics Options" tab is brought to the front (it contains the checklist), and the warning message "No statistics were selected! Select a statistic." is displayed.
    
    Returns:
    
    boolean if a selection in the JPanelAnonymizeImage has been made, returns true. Otherwise, returns false.
    
    See Also:
    
    JPanelAnonymizeImage
  - isTableDestinationOkay
```
private boolean isTableDestinationOkay()
```
    Locates the translation/key-file destination directory. If the directory is not there already, the directory is made. If there is a problem in creating the destination directory, the "Directory" tab is brought to the front; the warning message describing the error is displayed; then the text field with the destination directory is given focus, and all available text is displayed. If the translation/key-file is already present in the chosen directory, there will be an options dialog allowing the user to Overwrite the old translation/key-file, to append the the new translation/key to the end of the current file, or to cancel the entire operation (to look for a new location).
    
    Returns:
    
    boolean if the selected destination has been made, returns true. Otherwise, returns false.
  - setupNew
```
private java.io.File setupNew(java.io.File selected)
                       throws java.io.IOException,
                              java.lang.SecurityException
```
    makes the submitted directory as given by the inputted File, or the text as given in the given given textField. Priority is given to the text in the textfield, so if the File's path does not agree with the path in the text field, the directory will be made with the path in the text field. Should the text field not have any path, an IOException will be thrown indicating this problem. If the directory does not exist, it will be created; if there are errors in creating the directory, an IOException will be thrown, with error message describing the problem, with a possible remedy as a suggestion.
    
    Parameters:
    
    selected - DOCUMENT ME!
    
    Returns:
    
    File a directory
    
    Throws:
    
    java.io.IOException - -- failure to create the directory
    
    java.lang.SecurityException - DOCUMENT ME!
  - setVariables
```
private boolean setVariables()
```
    use the GUI results to set up the variables needed to run the algorithm.
    
    Returns:
    
    true if parameters set successfully, falseotherwise.
  - updateDialog
```
protected void updateDialog()
```
    Method for updating the GUI after the algorithm has completed, should not be called when scripting.
  - updateStatLog
```
protected void updateStatLog()
```
    Method for updating the table after the algorithm has completed. All relevant statistics are stored in the log model.
  - updateDialogRow
```
protected void updateDialogRow(VOI voi,
                               java.util.Vector<VOIBase>[] contours,
                               VOIStatisticalProperties properties,
                               javax.swing.ListModel list,
                               int i,
                               java.lang.String[] rowData,
                               java.lang.String[] totalData)
```
    Writes the statistic data for contours
    
    Parameters:
    
    voi -
  - updateRowStatistics
```
protected java.lang.String[] updateRowStatistics(VOI voi,
                                                 VOIStatisticalProperties properties,
                                                 java.lang.String[] rowData,
                                                 java.lang.String[] totalData,
                                                 java.lang.String end,
                                                 int count)
```
    Writes general statistics data for any VOI structure given a valid "end" modifier to specify the property being fetched.
    
    Parameters:
    
    voi -
  - writeLogHeader
```
protected void writeLogHeader()
```
    Writes the column titles of selected statistics calculations to the logModel.
  - writeLogModelToString
```
protected java.lang.StringBuffer writeLogModelToString()
```
    Converts the current logModel into either a tab-delimited text file or an XML file. TODO: Fix XML functionality.
    
    Returns:
  - writeStatisticFile
```
protected void writeStatisticFile()
```
    Writes out the statistics file based on the current logModel

Class JDialogVOIStatistics

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 gov.nih.mipav.model.structures.VOIStatisticList

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

VOI_TAB

STAT_TAB

LOG_TAB

APPEND

OVERWRITE

addremove

calculator

checkBoxPanel

checkList

doForce

everything

fileSelectorPanel

highlighter

image

logFileText

logModel

logTable

noisyProcess

outputOptionsPanel

overwriteBox

precision

processType

activeVolume

initialActiveVolume

tDim

subsetAlgo

subsetImage

doAllVolumes

processList

r

rangeMaximum

rangeMinimum

rangeMaximumR

rangeMinimumR

rangeMaximumG

rangeMinimumG

rangeMaximumB

rangeMinimumB

selectedList

showTotals

tableDestination

tableDestinationUsage

toolBar

userInterface

volumesList

xUnits

yUnits

zUnits

scriptRange

Constructor Detail

JDialogVOIStatistics