java.lang.Object
- java.awt.Component
- - java.awt.Container
  - - javax.swing.JComponent
    - - javax.swing.JPanel
      - gov.nih.mipav.view.renderer.WildMagic.DTI_FrameWork.JPanelDTIPreprocessing

All Implemented Interfaces:

AlgorithmInterface, java.awt.event.ActionListener, java.awt.event.ItemListener, java.awt.image.ImageObserver, java.awt.MenuContainer, java.io.Serializable, java.util.EventListener, javax.accessibility.Accessible
```
public class JPanelDTIPreprocessing
extends javax.swing.JPanel
implements AlgorithmInterface, java.awt.event.ActionListener, java.awt.event.ItemListener
```
See Also:

Serialized Form

Nested Class Summary
- Nested classes/interfaces inherited from class javax.swing.JPanel
  javax.swing.JPanel.AccessibleJPanel
- Nested classes/interfaces inherited from class javax.swing.JComponent
  javax.swing.JComponent.AccessibleJComponent
- 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 java.lang.String`	`b0MatrixFileName`	File name for the B0 to T2 transformation matrix (needed to populate the next panel in the DTIPipeline)
`private TransMatrix`	`b0toStructMatrix`	The transformation matrix describing the transformation from registering B0 to T2 image.
`javax.swing.JLabel`	`blanklabel`
`(package private) javax.swing.JPanel`	`buttonPanel`
`private float`	`coarseRateX`
`private float`	`coarseRateY`
`private float`	`coarseRateZ`
`private javax.swing.JComboBox`	`comboBoxCostFunct`	DOCUMENT ME!
`private javax.swing.JComboBox`	`comboBoxDOF`	DOCUMENT ME!
`private javax.swing.JComboBox`	`comboBoxInterp`	DOCUMENT ME!
`javax.swing.JCheckBox`	`correctGradTransCheckbox`
`private int`	`cost`	DOCUMENT ME!
`private int`	`costT2`	DOCUMENT ME!
`private int`	`DOF`	DOCUMENT ME!
`private int`	`DOFT2`	DOCUMENT ME!
`private boolean`	`doGraph`
`private boolean`	`doMultiThread`
`private boolean`	`doSubsample`
`private boolean`	`fastMode`
`private float`	`fineRateX`
`private float`	`fineRateY`
`private float`	`fineRateZ`
`private ModelImage`	`imageB0`	The B0 image from the original 4D DWI image series, extracted from the DWI volume:
`private ModelImage`	`imageT2`	The T2 image that the B0 image is registered to.
`private ModelImage`	`imageUpdatedDWI`	After the B0 image is registered to the T2 image the B0 sub-volume is replaced in the original DWI image, creating a new 4D DWI image:
`private int`	`interp`	DOCUMENT ME!
`private int`	`interpT2`	DOCUMENT ME!
`private javax.swing.JLabel`	`labelCost`
`private javax.swing.JLabel`	`labelDOF`
`private javax.swing.JLabel`	`labelInternal`
`private javax.swing.JLabel`	`labelInterp`
`private javax.swing.JPanel`	`mainPanel`
`javax.swing.JComboBox`	`matrixComboBox`	DOCUMENT ME!
`javax.swing.JTextField`	`matrixDirText`	DOCUMENT ME!
`private int`	`maxIterations`
`private boolean`	`maxOfMinResol`
`private int`	`numMinima`
`private javax.swing.JButton`	`OKButton`
`private javax.swing.JButton`	`openDirButton`
`private java.lang.String`	`outputCommand`	action command when the user presses the browse button to select the output directory:
`private javax.swing.JTextField`	`outputDir`	output directory enables user to choose where to save files to.
`(package private) javax.swing.JCheckBox`	`performEPICheckbox`
`private DTIPipeline`	`pipeline`
`private javax.swing.JLabel`	`preProsLabel`
`private javax.swing.JTextField`	`preProsText`
`protected ViewJProgressBar`	`progressBar`	Progress bar that will listen to a dialog's algorithm (and reflect current progress)
`javax.swing.JTextField`	`refImageNumText`	user-input for the B0 sub-volume number in the 4D DWI image
`private AlgorithmRegOAR3D`	`reg3`	DOCUMENT ME!
`private AlgorithmRegOAR35D`	`reg35`	DOCUMENT ME!
`(package private) int`	`registerTo`
`(package private) ModelImage`	`result35RegImage`
`private float`	`rotateBeginX`
`private float`	`rotateBeginY`
`private float`	`rotateBeginZ`
`private float`	`rotateEndX`
`private float`	`rotateEndY`
`private float`	`rotateEndZ`
`private static long`	`serialVersionUID`	Use serialVersionUID for interoperability.
`private java.awt.Font`	`serif12`
`private java.awt.Font`	`serif12B`
`private javax.swing.JCheckBox`	`skipPreCheckbox`
`javax.swing.JPanel`	`structOptPanel`
`javax.swing.JCheckBox`	`transformB0Checkbox`
`javax.swing.JLabel`	`transformB0label`
`javax.swing.JCheckBox`	`transformB0MatCheckbox`
`private javax.swing.JCheckBox`	`transformDWICheckbox`	DOCUMENT ME!
`javax.swing.JCheckBox`	`transformMatDWICheckbox`

Fields inherited from class javax.swing.JComponent
listenerList, TOOL_TIP_TEXT_KEY, ui, UNDEFINED_CONDITION, WHEN_ANCESTOR_OF_FOCUSED_COMPONENT, WHEN_FOCUSED, WHEN_IN_FOCUSED_WINDOW

Fields inherited from class java.awt.Component
accessibleContext, 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

Constructor Summary

Constructors
Constructor Description

JPanelDTIPreprocessing(DTIPipeline pipeline)

Method Summary

All Methods Instance Methods Concrete Methods
Modifier and Type	Method	Description
`void`	`actionPerformed(java.awt.event.ActionEvent event)`
`void`	`algorithmPerformed(AlgorithmBase algorithm)`	This method is required if the AlgorithmPerformed interface is implemented.
`private ModelImage`	`B0extraction(ModelImage image4D, int refVolumeNum)`	Extracts the reference sub-volume from the input 4D image.
`void`	`buildLoadPanel(java.awt.event.ActionListener listener, javax.swing.JPanel mainPanel, javax.swing.JLabel label, javax.swing.JTextField imageName, java.lang.String tooltip, java.lang.String actionCommand)`
`private javax.swing.JButton`	`buildOARButton()`
`private javax.swing.border.TitledBorder`	`buildTitledBorder(java.lang.String title)`
`protected void`	`callReg35Algorithm(ModelImage dwiImage)`	Calls the algorithm with the set-up parameters.
`protected void`	`callT2Algorithm(ModelImage refT2Image, ModelImage matchB0Image)`	Calls the algorithm with the set-up parameters.
`protected void`	`createProgressBar(java.lang.String title, AlgorithmBase pListener)`	Creates the progress bar that will listen to an algorithm's progress changes
`protected void`	`createProgressBar(java.lang.String title, java.lang.String msg, AlgorithmBase pListener)`	Creates the progress bar (should be created within JDialog's callAlgorithm method
`private void`	`init()`	Initializes the GUI components and displays the dialog.
`void`	`itemStateChanged(java.awt.event.ItemEvent arg0)`
`private ModelImage`	`resampleT2(ModelImage oldT2, ModelImage matchB0)`	Resamples the input ModelImage to match the extents and resolutions of the second ModelImage.
`void`	`saveTransformMatrix(java.lang.String fileName, TransMatrix[] matrix)`	This method creates the Trans Matrices Array file for DTI Preprocessing
`void`	`setOutputDirectory(java.lang.String directory)`	Sets the default output directory for the images generated by this panel.
`private boolean`	`setVariablesForOAR35D()`	Sets the variables needed to call the registration algorithm based on the values entered in the dialog.

Methods inherited from class javax.swing.JPanel
getAccessibleContext, getUI, getUIClassID, paramString, setUI, updateUI

Methods inherited from class javax.swing.JComponent
addAncestorListener, addNotify, addVetoableChangeListener, computeVisibleRect, contains, createToolTip, disable, enable, firePropertyChange, firePropertyChange, firePropertyChange, fireVetoableChange, getActionForKeyStroke, getActionMap, getAlignmentX, getAlignmentY, getAncestorListeners, getAutoscrolls, getBaseline, getBaselineResizeBehavior, getBorder, getBounds, getClientProperty, getComponentGraphics, getComponentPopupMenu, getConditionForKeyStroke, getDebugGraphicsOptions, getDefaultLocale, getFontMetrics, getGraphics, getHeight, getInheritsPopupMenu, getInputMap, getInputMap, getInputVerifier, getInsets, getInsets, getListeners, getLocation, getMaximumSize, getMinimumSize, getNextFocusableComponent, getPopupLocation, getPreferredSize, getRegisteredKeyStrokes, getRootPane, getSize, getToolTipLocation, getToolTipText, getToolTipText, getTopLevelAncestor, getTransferHandler, getVerifyInputWhenFocusTarget, getVetoableChangeListeners, getVisibleRect, getWidth, getX, getY, grabFocus, hide, isDoubleBuffered, isLightweightComponent, isManagingFocus, isOpaque, isOptimizedDrawingEnabled, isPaintingForPrint, isPaintingOrigin, isPaintingTile, isRequestFocusEnabled, isValidateRoot, paint, paintBorder, paintChildren, paintComponent, paintImmediately, paintImmediately, print, printAll, printBorder, printChildren, printComponent, processComponentKeyEvent, processKeyBinding, processKeyEvent, processMouseEvent, processMouseMotionEvent, putClientProperty, registerKeyboardAction, registerKeyboardAction, removeAncestorListener, removeNotify, removeVetoableChangeListener, repaint, repaint, requestDefaultFocus, requestFocus, requestFocus, requestFocusInWindow, requestFocusInWindow, resetKeyboardActions, reshape, revalidate, scrollRectToVisible, setActionMap, setAlignmentX, setAlignmentY, setAutoscrolls, setBackground, setBorder, setComponentPopupMenu, setDebugGraphicsOptions, setDefaultLocale, setDoubleBuffered, setEnabled, setFocusTraversalKeys, setFont, setForeground, setInheritsPopupMenu, setInputMap, setInputVerifier, setMaximumSize, setMinimumSize, setNextFocusableComponent, setOpaque, setPreferredSize, setRequestFocusEnabled, setToolTipText, setTransferHandler, setUI, setVerifyInputWhenFocusTarget, setVisible, unregisterKeyboardAction, update

Methods inherited from class java.awt.Container
add, add, add, add, add, addContainerListener, addImpl, addPropertyChangeListener, addPropertyChangeListener, applyComponentOrientation, areFocusTraversalKeysSet, countComponents, deliverEvent, doLayout, findComponentAt, findComponentAt, getComponent, getComponentAt, getComponentAt, getComponentCount, getComponents, getComponentZOrder, getContainerListeners, getFocusTraversalKeys, getFocusTraversalPolicy, getLayout, getMousePosition, insets, invalidate, isAncestorOf, isFocusCycleRoot, isFocusCycleRoot, isFocusTraversalPolicyProvider, isFocusTraversalPolicySet, layout, list, list, locate, minimumSize, paintComponents, preferredSize, printComponents, processContainerEvent, processEvent, remove, remove, removeAll, removeContainerListener, setComponentZOrder, setFocusCycleRoot, setFocusTraversalPolicy, setFocusTraversalPolicyProvider, setLayout, 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, createImage, createImage, createVolatileImage, createVolatileImage, disableEvents, dispatchEvent, enable, enableEvents, enableInputMethods, firePropertyChange, firePropertyChange, firePropertyChange, firePropertyChange, firePropertyChange, firePropertyChange, getBackground, getBounds, getColorModel, getComponentListeners, getComponentOrientation, getCursor, getDropTarget, getFocusCycleRootAncestor, getFocusListeners, getFocusTraversalKeysEnabled, getFont, getForeground, getGraphicsConfiguration, getHierarchyBoundsListeners, getHierarchyListeners, getIgnoreRepaint, getInputContext, getInputMethodListeners, getInputMethodRequests, getKeyListeners, getLocale, getLocation, getLocationOnScreen, getMouseListeners, getMouseMotionListeners, getMousePosition, getMouseWheelListeners, getName, getParent, getPropertyChangeListeners, getPropertyChangeListeners, getSize, getToolkit, getTreeLock, gotFocus, handleEvent, hasFocus, imageUpdate, inside, isBackgroundSet, isCursorSet, isDisplayable, isEnabled, isFocusable, isFocusOwner, isFocusTraversable, isFontSet, isForegroundSet, isLightweight, isMaximumSizeSet, isMinimumSizeSet, isPreferredSizeSet, isShowing, isValid, isVisible, keyDown, keyUp, list, list, list, location, lostFocus, mouseDown, mouseDrag, mouseEnter, mouseExit, mouseMove, mouseUp, move, nextFocus, paintAll, postEvent, prepareImage, prepareImage, processComponentEvent, processFocusEvent, processHierarchyBoundsEvent, processHierarchyEvent, processInputMethodEvent, processMouseWheelEvent, remove, removeComponentListener, removeFocusListener, removeHierarchyBoundsListener, removeHierarchyListener, removeInputMethodListener, removeKeyListener, removeMouseListener, removeMouseMotionListener, removeMouseWheelListener, removePropertyChangeListener, removePropertyChangeListener, repaint, repaint, repaint, requestFocus, requestFocus, requestFocusInWindow, resize, resize, setBounds, setBounds, setComponentOrientation, setCursor, setDropTarget, setFocusable, setFocusTraversalKeysEnabled, setIgnoreRepaint, setLocale, setLocation, setLocation, setMixingCutoutShape, setName, setSize, setSize, show, 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

pipeline
```
private DTIPipeline pipeline
```

imageB0
```
private ModelImage imageB0
```
The B0 image from the original 4D DWI image series, extracted from the DWI volume:

imageT2
```
private ModelImage imageT2
```
The T2 image that the B0 image is registered to. This may be the original T2 if it matched the extents/resultions of the other image Or it is the resampled T2 image

imageUpdatedDWI
```
private ModelImage imageUpdatedDWI
```
After the B0 image is registered to the T2 image the B0 sub-volume is replaced in the original DWI image, creating a new 4D DWI image:

b0toStructMatrix
```
private TransMatrix b0toStructMatrix
```
The transformation matrix describing the transformation from registering B0 to T2 image. If that step in the process is skipped, this defaults to the identity matrix:

b0MatrixFileName
```
private java.lang.String b0MatrixFileName
```
File name for the B0 to T2 transformation matrix (needed to populate the next panel in the DTIPipeline)

serif12
```
private java.awt.Font serif12
```

serif12B
```
private java.awt.Font serif12B
```

refImageNumText
```
public javax.swing.JTextField refImageNumText
```
user-input for the B0 sub-volume number in the 4D DWI image

comboBoxDOF

private javax.swing.JComboBox comboBoxDOF

DOCUMENT ME!

progressBar
```
protected ViewJProgressBar progressBar
```
Progress bar that will listen to a dialog's algorithm (and reflect current progress)

comboBoxInterp

private javax.swing.JComboBox comboBoxInterp

DOCUMENT ME!

comboBoxCostFunct

private javax.swing.JComboBox comboBoxCostFunct

DOCUMENT ME!

transformDWICheckbox

private javax.swing.JCheckBox transformDWICheckbox

DOCUMENT ME!

matrixComboBox

public javax.swing.JComboBox matrixComboBox

DOCUMENT ME!

matrixDirText

public javax.swing.JTextField matrixDirText

DOCUMENT ME!

OKButton
```
private javax.swing.JButton OKButton
```

mainPanel
```
private javax.swing.JPanel mainPanel
```

reg3
```
private AlgorithmRegOAR3D reg3
```
DOCUMENT ME!

reg35
```
private AlgorithmRegOAR35D reg35
```
DOCUMENT ME!

cost
```
private int cost
```
DOCUMENT ME!

interp
```
private int interp
```
DOCUMENT ME!

DOF
```
private int DOF
```
DOCUMENT ME!

costT2
```
private int costT2
```
DOCUMENT ME!

interpT2
```
private int interpT2
```
DOCUMENT ME!

DOFT2
```
private int DOFT2
```
DOCUMENT ME!

rotateBeginX
```
private float rotateBeginX
```

rotateEndX
```
private float rotateEndX
```

coarseRateX
```
private float coarseRateX
```

fineRateX
```
private float fineRateX
```

rotateBeginY
```
private float rotateBeginY
```

rotateEndY
```
private float rotateEndY
```

coarseRateY
```
private float coarseRateY
```

fineRateY
```
private float fineRateY
```

rotateBeginZ
```
private float rotateBeginZ
```

rotateEndZ
```
private float rotateEndZ
```

coarseRateZ
```
private float coarseRateZ
```

fineRateZ
```
private float fineRateZ
```

maxOfMinResol
```
private boolean maxOfMinResol
```

doSubsample
```
private boolean doSubsample
```

doMultiThread
```
private boolean doMultiThread
```

fastMode
```
private boolean fastMode
```

doGraph
```
private boolean doGraph
```

maxIterations
```
private int maxIterations
```

numMinima
```
private int numMinima
```

registerTo
```
int registerTo
```

transformMatDWICheckbox

public javax.swing.JCheckBox transformMatDWICheckbox

transformB0label

public javax.swing.JLabel transformB0label

transformB0MatCheckbox

public javax.swing.JCheckBox transformB0MatCheckbox

transformB0Checkbox

public javax.swing.JCheckBox transformB0Checkbox

blanklabel
```
public javax.swing.JLabel blanklabel
```

skipPreCheckbox

private javax.swing.JCheckBox skipPreCheckbox

correctGradTransCheckbox

public javax.swing.JCheckBox correctGradTransCheckbox

labelDOF
```
private javax.swing.JLabel labelDOF
```

labelCost
```
private javax.swing.JLabel labelCost
```

labelInternal

private javax.swing.JLabel labelInternal

labelInterp
```
private javax.swing.JLabel labelInterp
```

structOptPanel

public javax.swing.JPanel structOptPanel

outputDir
```
private javax.swing.JTextField outputDir
```
output directory enables user to choose where to save files to.

outputCommand
```
private java.lang.String outputCommand
```
action command when the user presses the browse button to select the output directory:

buttonPanel
```
javax.swing.JPanel buttonPanel
```

result35RegImage
```
ModelImage result35RegImage
```

performEPICheckbox

javax.swing.JCheckBox performEPICheckbox

preProsText

private javax.swing.JTextField preProsText

preProsLabel

private javax.swing.JLabel preProsLabel

openDirButton

private javax.swing.JButton openDirButton

Constructor Detail

JPanelDTIPreprocessing

public JPanelDTIPreprocessing(DTIPipeline pipeline)

Method Detail
- actionPerformed
```
public void actionPerformed(java.awt.event.ActionEvent event)
```
  Specified by:
  
  actionPerformed in interface java.awt.event.ActionListener
- 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 complete.
  
  Specified by:
  
  algorithmPerformed in interface AlgorithmInterface
  
  Parameters:
  
  algorithm - Algorithm that caused the event.
- itemStateChanged
```
public void itemStateChanged(java.awt.event.ItemEvent arg0)
```
  Specified by:
  
  itemStateChanged in interface java.awt.event.ItemListener
- saveTransformMatrix
```
public void saveTransformMatrix(java.lang.String fileName,
                                TransMatrix[] matrix)
```
  This method creates the Trans Matrices Array file for DTI Preprocessing
- setOutputDirectory
```
public void setOutputDirectory(java.lang.String directory)
```
  Sets the default output directory for the images generated by this panel.
  
  Parameters:
  
  directory -
- callReg35Algorithm
```
protected void callReg35Algorithm(ModelImage dwiImage)
```
  Calls the algorithm with the set-up parameters.
- callT2Algorithm
```
protected void callT2Algorithm(ModelImage refT2Image,
                               ModelImage matchB0Image)
```
  Calls the algorithm with the set-up parameters.
- createProgressBar
```
protected void createProgressBar(java.lang.String title,
                                 AlgorithmBase pListener)
```
  Creates the progress bar that will listen to an algorithm's progress changes
  
  Parameters:
  
  title - progress bar's title
  
  pListener - algorithmbase that will notify progress updates to the pBar
- createProgressBar
```
protected void createProgressBar(java.lang.String title,
                                 java.lang.String msg,
                                 AlgorithmBase pListener)
```
  Creates the progress bar (should be created within JDialog's callAlgorithm method
  
  Parameters:
  
  title - progress bar's title
  
  msg - the message to display on the progress bar (initial setting)
  
  pListener - the algorithm that will register the progress bar as a listener
- B0extraction
```
private ModelImage B0extraction(ModelImage image4D,
                                int refVolumeNum)
```
  Extracts the reference sub-volume from the input 4D image.
  
  Parameters:
  
  image4D - 4D image to extract the sub-volume from.
  
  refVolumeNum - the reference sub-volume number.
  
  Returns:
  
  a new ModelImage containing the extracted sub-volume.
- buildOARButton
```
private javax.swing.JButton buildOARButton()
```
- buildTitledBorder
```
private javax.swing.border.TitledBorder buildTitledBorder(java.lang.String title)
```
- buildLoadPanel
```
public void buildLoadPanel(java.awt.event.ActionListener listener,
                           javax.swing.JPanel mainPanel,
                           javax.swing.JLabel label,
                           javax.swing.JTextField imageName,
                           java.lang.String tooltip,
                           java.lang.String actionCommand)
```
- init
```
private void init()
```
  Initializes the GUI components and displays the dialog.
- resampleT2
```
private ModelImage resampleT2(ModelImage oldT2,
                              ModelImage matchB0)
```
  Resamples the input ModelImage to match the extents and resolutions of the second ModelImage.
  
  Parameters:
  
  oldT2 - input image that will be resampled
  
  matchB0 - the image to match
  
  Returns:
  
  resampled version of the first input image.
- setVariablesForOAR35D
```
private boolean setVariablesForOAR35D()
```
  Sets the variables needed to call the registration algorithm based on the values entered in the dialog.
  
  Returns:
  
  true if the variables are properly set, false otherwise.

Class JPanelDTIPreprocessing

Nested Class Summary

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

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

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

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

Field Summary

Fields inherited from class javax.swing.JComponent

Fields inherited from class java.awt.Component

Fields inherited from interface java.awt.image.ImageObserver

Constructor Summary

Method Summary

Methods inherited from class javax.swing.JPanel

Methods inherited from class javax.swing.JComponent

Methods inherited from class java.awt.Container

Methods inherited from class java.awt.Component

Methods inherited from class java.lang.Object

Field Detail

serialVersionUID

pipeline

imageB0

imageT2

imageUpdatedDWI

b0toStructMatrix

b0MatrixFileName

serif12

serif12B

refImageNumText

comboBoxDOF

progressBar

comboBoxInterp

comboBoxCostFunct

transformDWICheckbox

matrixComboBox

matrixDirText

OKButton

mainPanel

reg3

reg35

cost

interp

DOF

costT2

interpT2

DOFT2

rotateBeginX

rotateEndX

coarseRateX

fineRateX

rotateBeginY

rotateEndY

coarseRateY

fineRateY

rotateBeginZ

rotateEndZ

coarseRateZ

fineRateZ

maxOfMinResol

doSubsample

doMultiThread

fastMode

doGraph

maxIterations

numMinima

registerTo

transformMatDWICheckbox

transformB0label

transformB0MatCheckbox

transformB0Checkbox

blanklabel

skipPreCheckbox

correctGradTransCheckbox

labelDOF

labelCost

labelInternal

labelInterp

structOptPanel

outputDir

outputCommand

buttonPanel