Package gov.nih.mipav.view.dialogs

Class JDialogImageInfo

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.JDialogImageInfo

All Implemented Interfaces:

AlgorithmInterface, DialogDefaultsInterface, ActionListener, FocusListener, ItemListener, WindowListener, ImageObserver, MenuContainer, Serializable, EventListener, Accessible, RootPaneContainer, WindowConstants

public class JDialogImageInfo
extends JDialogBase
implements ActionListener, AlgorithmInterface

The image attribute input dialog, which consists of six tabbled panes allowing the user to edit image name, resolutions, orientations, dataset origin, history, and transformation matrix.

Version:

0.1 Nov 23, 1999

Author:

Matthew J. McAuliffe, Ph.D.

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

JDialog.AccessibleJDialog

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

Dialog.AccessibleAWTDialog, Dialog.ModalExclusionType, Dialog.ModalityType

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

Window.AccessibleAWTWindow, Window.Type

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

Container.AccessibleAWTContainer

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

Component.AccessibleAWTComponent, Component.BaselineResizeBehavior, Component.BltBufferStrategy, Component.FlipBufferStrategy

Field Summary

Fields

Modifier and Type	Field	Description
private JTextField[]	acpcACFields	DOCUMENT ME!
private JTextField[]	acpcDimFields	DOCUMENT ME!
private JTextField[]	acpcMaxFields	DOCUMENT ME!
private JTextField[]	acpcMinFields	TLRC Specific info.
private JTextField[]	acpcPCFields	DOCUMENT ME!
private JTextField	acpcResField	DOCUMENT ME!
private JButton	addReplaceMatrix	Add as New/Replace button (depending on selected matrix type).
private JButton	applyButton	DOCUMENT ME!
private JRadioButton	bigEnd	Radio button to denote image is big endian.
private JPanel	buttonPanel	DOCUMENT ME!
private AlgorithmChangeType	changeTypeAlgo	DOCUMENT ME!!
private JComboBox	comboBoxUnitOfMeasure1	DOCUMENT ME!
private JComboBox	comboBoxUnitOfMeasure3	DOCUMENT ME!
private JComboBox	comboBoxUnitOfMeasure4	DOCUMENT ME!
private JComboBox	comboBoxUnitOfMeasure5	DOCUMENT ME!
private int	DIM	DOCUMENT ME!
private boolean	endianess	Indicates the endianess of the image.
private TransMatrix	fileTransMatrix	DOCUMENT ME!
private final Font	font12B	DOCUMENT ME!
private final ModelImage	image	DOCUMENT ME!
private JCheckBox	isTLRCBox	DOCUMENT ME!
private boolean	leftHandSystem	If true change matrix to the left-hand coordinate system.
private JButton	linkedImageButton	DOCUMENT ME!
private JTextField	linkedImageField	DOCUMENT ME!
private JRadioButton	littleEnd	Radio button to denote image is little endian.
private JButton	loadButton	DOCUMENT ME!
private double[][]	matrix	DOCUMENT ME!
private JComboBox	matrixBox	Box to hold the matrices parsed from the MatrixHolder.
private String	matrixFile	DOCUMENT ME!
private int	measure1	DOCUMENT ME!
private int	measure3	DOCUMENT ME!
private int	measure4	DOCUMENT ME!
private int	measure5	DOCUMENT ME!
private int	modality	DOCUMENT ME!
private JComboBox	modalityBox	DOCUMENT ME!
private String[]	modalityStr	DOCUMENT ME!
private JTextField	nameText	DOCUMENT ME!
private String	newImageName	DOCUMENT ME!
private int	orient	DOCUMENT ME!
private JComboBox	orientationBox1	DOCUMENT ME!
private JComboBox	orientationBox2	DOCUMENT ME!
private JComboBox	orientationBox3	DOCUMENT ME!
private final int[]	orientAxis	DOCUMENT ME!
private JComboBox	orientBox	DOCUMENT ME!
private JTextField[]	orientFields	DOCUMENT ME!
private JTextField[]	origACFields	ACPC Specific info.
private JTextField[]	origDimFields	DOCUMENT ME!
private float[]	origin	DOCUMENT ME!
private JTextField[]	origOriginFields
private JTextField[]	origPCFields	DOCUMENT ME!
private JTextField[]	origResFields	DOCUMENT ME!
private final ModelImage	resampleImage	DOCUMENT ME!
private int	resIndex	DOCUMENT ME!
private boolean	resizeOnClose
private JCheckBox	resolutionBox	DOCUMENT ME!
private float[]	resolutions	DOCUMENT ME!
private JButton	saveButton	DOCUMENT ME!
private static final long	serialVersionUID	Use serialVersionUID for interoperability.
private float	sliceThickness	DOCUMENT ME!
private JTabbedPane	tabbedPane	DOCUMENT ME!
private JTextField[][]	textMatrix	DOCUMENT ME!
private JTextField	textRes1	DOCUMENT ME!
private JTextField	textRes2	DOCUMENT ME!
private JTextField	textRes3	DOCUMENT ME!
private JTextField	textRes4	DOCUMENT ME!
private JTextField	textRes5	DOCUMENT ME!
private JTextField	textSliceThickness	DOCUMENT ME!
private JTextField	textSt1	DOCUMENT ME!
private JTextField	textSt2	DOCUMENT ME!
private JTextField	textSt3	DOCUMENT ME!
private JTextField	textSt4	DOCUMENT ME!
private String[]	titles	DOCUMENT ME!
private JTextField[]	tlrcACFields	DOCUMENT ME!
private JTextField[]	tlrcDimFields	DOCUMENT ME!
private JTextField[]	tlrcPCFields	DOCUMENT ME!
private JTextField[]	tlrcResFields	DOCUMENT ME!
private JComboBox	transformIDBox	DOCUMENT ME!
private final ViewUserInterface	userInterface	DOCUMENT ME!
private boolean	wcSystem	If true change matrix to the world coordinate system.

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

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
JDialogImageInfo(Frame theParentFrame, ModelImage im, int zSlice, int tSlice)	Builds the image attribute input dialog, with three tabbled panes allowing the user to edit image name, orientation, resolutions, and transformation matrix.

Method Summary

Modifier and Type	Method	Description
void	actionPerformed(ActionEvent event)	When Apply button is pressed, applies changes to all three areas: image name, resolutions, and transformation matrix.
void	algorithmPerformed(AlgorithmBase algorithm)	DOCUMENT ME!
private JPanel	buildComboBox()	Builds the ComboBox panel editing units of measure.
private JPanel	buildGeneralPanel()	Builds the "edit image name" panel.
private JPanel	buildMatrixPanel()	Builds the panel usd in the tabbed pane "transform" as appropriate for the number of dimensions of the image.
private JPanel	buildOrientPanel()	Builds the "orientation edit" panel.
private JPanel	buildResolutionPanel()	Builds the panels which is edited in the tabbed pane "resolutions".
private JPanel	buildStartLocationsPanel()	Builds the panels which is edited in the tabbed pane "Dataset Origin".
private JScrollPane	buildTalairachPanel()	Builds the Talairach Transform scrollpane with all talairach related data.
private void	init(String addTitle)	Initializes the dialog box and adds the components.
protected static float[]	initResFactor(float[] imgResols, int[] imgUnits)	Get the resolution correction needed for non-isotropic images.
void	itemStateChanged(ItemEvent e)	DOCUMENT ME!
String	matrixFileMenu()	Allows the user to select matrix file.
void	populateTalairachTab()	Looks at TalairachTransformInfo saved in ModelImage and populates the talairach scrollpane with the appropriate data.
void	readTransformMatrixFile(String fileName)	Reads a matrix from a file.
private TransMatrix	reorientCoordSystem(TransMatrix rkMatrix)	Re-orient the matrix to world and left-hand coordinate systems if required.
private void	setComboBox(JComboBox cBox)	Sets combo box choices that match resolution units listed in FileInfoBase and in the same order.
void	setLeftHandSystem(boolean leftHandSys)	Sets the left-hand coordinate flag.
void	setMatrix(TransMatrix newMatrix)	update matrix and text matrix
void	setResolutionTag()	Set the resolution tag in front view.
void	setSlice(int z, int t)	Update the title bar and resolution information.
private boolean	setVariables()	Sets the variables appropriately from the GUI.
void	setWCSystem(boolean wcSys)	Sets the world coordinate flag.
private void	updateEndianess()	Updates the image endianess.
private void	updateImageModality()	Updates the image modality.
private void	updateImageOrientation()	Updates the image orientation.
private void	updateMatrixBox(boolean refreshFields)	Refreshes the matrix combo box with the list of available matrices within the image.
private void	updateMatrixFields(TransMatrix newMatrix)	Updates the matrix fields (transform ID, jtextfields).
private void	updateMatrixInfo()	Updates the image with the new Matrix information (for matrix replacement).
private void	updateOriginInfo()	Updates the origin.
private void	updateResolInfo()	Gives the image new resolutions.
private void	updateTalairachInfo()	updates the talairach transform info.
private void	updateTransformInfo(TransMatrix tMat)	Applies the values in the JTabbedPane "Transform" to the transform matrix in the image.
private void	updateXMLLinkedFile()	method to update the xml file infos with a new linked image path.

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, loadDefaults, loadDefaults, makeImageName, makeString, openNewFrame, saveDefaults, saveDefaults, setQuietRunning, setScriptRunning, setSeparateThread, setVisible, setVisible, setVisibleMenuBar, setVisibleStandard, setVOIManager, 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 Details

serialVersionUID

private static final long serialVersionUID

Use serialVersionUID for interoperability.

See Also:

• Constant Field Values

acpcACFields

private JTextField[] acpcACFields

DOCUMENT ME!

acpcDimFields

private JTextField[] acpcDimFields

DOCUMENT ME!

acpcMaxFields

private JTextField[] acpcMaxFields

DOCUMENT ME!

acpcMinFields

private JTextField[] acpcMinFields

TLRC Specific info.

acpcPCFields

private JTextField[] acpcPCFields

DOCUMENT ME!

acpcResField

private JTextField acpcResField

DOCUMENT ME!

addReplaceMatrix

private JButton addReplaceMatrix

Add as New/Replace button (depending on selected matrix type).

applyButton

private JButton applyButton

DOCUMENT ME!

bigEnd

private JRadioButton bigEnd

Radio button to denote image is big endian.

buttonPanel

private JPanel buttonPanel

DOCUMENT ME!

changeTypeAlgo

private AlgorithmChangeType changeTypeAlgo

DOCUMENT ME!!

comboBoxUnitOfMeasure1

private JComboBox comboBoxUnitOfMeasure1

DOCUMENT ME!

comboBoxUnitOfMeasure3

private JComboBox comboBoxUnitOfMeasure3

DOCUMENT ME!

comboBoxUnitOfMeasure4

private JComboBox comboBoxUnitOfMeasure4

DOCUMENT ME!

comboBoxUnitOfMeasure5

private JComboBox comboBoxUnitOfMeasure5

DOCUMENT ME!

DIM

private int DIM

DOCUMENT ME!

endianess

private boolean endianess

Indicates the endianess of the image.

fileTransMatrix

private TransMatrix fileTransMatrix

DOCUMENT ME!

font12B

private final Font font12B

DOCUMENT ME!

image

private final ModelImage image

DOCUMENT ME!

isTLRCBox

private JCheckBox isTLRCBox

DOCUMENT ME!

leftHandSystem

private boolean leftHandSystem

If true change matrix to the left-hand coordinate system.

linkedImageButton

private JButton linkedImageButton

DOCUMENT ME!

linkedImageField

private JTextField linkedImageField

DOCUMENT ME!

littleEnd

private JRadioButton littleEnd

Radio button to denote image is little endian.

loadButton

private JButton loadButton

DOCUMENT ME!

matrix

private double[][] matrix

DOCUMENT ME!

matrixBox

private JComboBox matrixBox

Box to hold the matrices parsed from the MatrixHolder.

matrixFile

private String matrixFile

DOCUMENT ME!

measure1

private int measure1

DOCUMENT ME!

measure3

private int measure3

DOCUMENT ME!

measure4

private int measure4

DOCUMENT ME!

measure5

private int measure5

DOCUMENT ME!

modality

private int modality

DOCUMENT ME!

modalityBox

private JComboBox modalityBox

DOCUMENT ME!

modalityStr

private String[] modalityStr

DOCUMENT ME!

nameText

private JTextField nameText

DOCUMENT ME!

newImageName

private String newImageName

DOCUMENT ME!

orient

private int orient

DOCUMENT ME!

orientationBox1

private JComboBox orientationBox1

DOCUMENT ME!

orientationBox2

private JComboBox orientationBox2

DOCUMENT ME!

orientationBox3

private JComboBox orientationBox3

DOCUMENT ME!

orientAxis

private final int[] orientAxis

DOCUMENT ME!

orientBox

private JComboBox orientBox

DOCUMENT ME!

orientFields

private JTextField[] orientFields

DOCUMENT ME!

origACFields

private JTextField[] origACFields

ACPC Specific info.

origDimFields

private JTextField[] origDimFields

DOCUMENT ME!

origOriginFields

private JTextField[] origOriginFields

origin

private float[] origin

DOCUMENT ME!

origPCFields

private JTextField[] origPCFields

DOCUMENT ME!

origResFields

private JTextField[] origResFields

DOCUMENT ME!

resampleImage

private final ModelImage resampleImage

DOCUMENT ME!

resIndex

private int resIndex

DOCUMENT ME!

resolutionBox

private JCheckBox resolutionBox

DOCUMENT ME!

resolutions

private float[] resolutions

DOCUMENT ME!

saveButton

private JButton saveButton

DOCUMENT ME!

sliceThickness

private float sliceThickness

DOCUMENT ME!

tabbedPane

private JTabbedPane tabbedPane

DOCUMENT ME!

textMatrix

private JTextField[][] textMatrix

DOCUMENT ME!

textRes1

private JTextField textRes1

DOCUMENT ME!

textRes2

private JTextField textRes2

DOCUMENT ME!

textRes3

private JTextField textRes3

DOCUMENT ME!

textRes4

private JTextField textRes4

DOCUMENT ME!

textRes5

private JTextField textRes5

DOCUMENT ME!

textSt1

private JTextField textSt1

DOCUMENT ME!

textSt2

private JTextField textSt2

DOCUMENT ME!

textSt3

private JTextField textSt3

DOCUMENT ME!

textSt4

private JTextField textSt4

DOCUMENT ME!

textSliceThickness

private JTextField textSliceThickness

DOCUMENT ME!

titles

private String[] titles

DOCUMENT ME!

tlrcACFields

private JTextField[] tlrcACFields

DOCUMENT ME!

tlrcDimFields

private JTextField[] tlrcDimFields

DOCUMENT ME!

tlrcPCFields

private JTextField[] tlrcPCFields

DOCUMENT ME!

tlrcResFields

private JTextField[] tlrcResFields

DOCUMENT ME!

transformIDBox

private JComboBox transformIDBox

DOCUMENT ME!

userInterface

private final ViewUserInterface userInterface

DOCUMENT ME!

wcSystem

private boolean wcSystem

If true change matrix to the world coordinate system.

resizeOnClose

private boolean resizeOnClose

Constructor Details

JDialogImageInfo

public JDialogImageInfo(Frame theParentFrame,
 ModelImage im,
 int zSlice,
 int tSlice)

Builds the image attribute input dialog, with three tabbled panes allowing the user to edit image name, orientation, resolutions, and transformation matrix.

Parameters:

theParentFrame - Parent frame of dialog.

im - Image whose attributes the user is editing.

zSlice - DOCUMENT ME!

tSlice - DOCUMENT ME!

Method Details

actionPerformed

public void actionPerformed(ActionEvent event)

When Apply button is pressed, applies changes to all three areas: image name, resolutions, and transformation matrix. When OK button is pressed, applies changes and closes dialog box. When Cancel button is pressed, closes dialog without making any additional changes.

Specified by:

actionPerformed in interface ActionListener

Overrides:

actionPerformed in class JDialogBase

Parameters:

event - Event that triggers this function.

algorithmPerformed

public void algorithmPerformed(AlgorithmBase algorithm)

DOCUMENT ME!

Specified by:

algorithmPerformed in interface AlgorithmInterface

Parameters:

algorithm - DOCUMENT ME!

itemStateChanged

public void itemStateChanged(ItemEvent e)

DOCUMENT ME!

Specified by:

itemStateChanged in interface ItemListener

Overrides:

itemStateChanged in class JDialogBase

Parameters:

e - DOCUMENT ME!

matrixFileMenu

public String matrixFileMenu()

Allows the user to select matrix file.

Returns:

fileName

populateTalairachTab

public void populateTalairachTab()

Looks at TalairachTransformInfo saved in ModelImage and populates the talairach scrollpane with the appropriate data.

readTransformMatrixFile

public void readTransformMatrixFile(String fileName)

Reads a matrix from a file.

Parameters:

fileName - name of the matrix file.

setLeftHandSystem

public void setLeftHandSystem(boolean leftHandSys)

Sets the left-hand coordinate flag. If true, change matrix to the left-hand coordinate system.

Overrides:

setLeftHandSystem in class JDialogBase

Parameters:

leftHandSys - true for left-handed

setMatrix

public void setMatrix(TransMatrix newMatrix)

update matrix and text matrix

Parameters:

newMatrix - matrix to copy

setResolutionTag

public void setResolutionTag()

Set the resolution tag in front view.

setSlice

public void setSlice(int z,
 int t)

Update the title bar and resolution information.

Parameters:

z - int z-dim

t - int t-dim

setWCSystem

public void setWCSystem(boolean wcSys)

Sets the world coordinate flag. If true, change matrix to the world coordinate system.

Overrides:

setWCSystem in class JDialogBase

Parameters:

wcSys - DOCUMENT ME!

buildComboBox

private JPanel buildComboBox()

Builds the ComboBox panel editing units of measure.

Returns:

The combo box panel.

buildGeneralPanel

private JPanel buildGeneralPanel()

Builds the "edit image name" panel.

Returns:

The panel on which the user can edit the name of the image.

buildMatrixPanel

private JPanel buildMatrixPanel()

Builds the panel usd in the tabbed pane "transform" as appropriate for the number of dimensions of the image.

Returns:

The newly created matrix panel.

buildOrientPanel

private JPanel buildOrientPanel()

Builds the "orientation edit" panel.

Returns:

The panel on which the user can edit the name of the image.

buildResolutionPanel

private JPanel buildResolutionPanel()

Builds the panels which is edited in the tabbed pane "resolutions".

Returns:

The resolutions panel.

buildStartLocationsPanel

private JPanel buildStartLocationsPanel()

Builds the panels which is edited in the tabbed pane "Dataset Origin".

Returns:

The Dataset Origin panel.

buildTalairachPanel

private JScrollPane buildTalairachPanel()

Builds the Talairach Transform scrollpane with all talairach related data.

Returns:

JScrollPane talairach scrollpane

init

private void init(String addTitle)

Initializes the dialog box and adds the components.

Parameters:

addTitle - DOCUMENT ME!

reorientCoordSystem

private TransMatrix reorientCoordSystem(TransMatrix rkMatrix)

Re-orient the matrix to world and left-hand coordinate systems if required.

Parameters:

rkMatrix - the matrix to be converted

Returns:

result

See Also:

• reorientCoordSystem(gov.nih.mipav.model.structures.TransMatrix)

setComboBox

private void setComboBox(JComboBox cBox)

Sets combo box choices that match resolution units listed in FileInfoBase and in the same order.

Parameters:

cBox - Combo box to setup to display the units.

setVariables

private boolean setVariables()

Sets the variables appropriately from the GUI.

Returns:

Flag indicating successful set.

updateEndianess

private void updateEndianess()

Updates the image endianess.

updateImageModality

private void updateImageModality()

Updates the image modality.

updateImageOrientation

private void updateImageOrientation()

Updates the image orientation.

updateMatrixBox

private void updateMatrixBox(boolean refreshFields)

Refreshes the matrix combo box with the list of available matrices within the image.

Parameters:

refreshFields - whether or not to refresh the matrix fields (not done in init() bc of order of operations)

updateMatrixFields

private void updateMatrixFields(TransMatrix newMatrix)

Updates the matrix fields (transform ID, jtextfields).

Parameters:

newMatrix - new matrix to use in the update

updateMatrixInfo

private void updateMatrixInfo()

Updates the image with the new Matrix information (for matrix replacement).

updateOriginInfo

private void updateOriginInfo()

Updates the origin. Each image has a fileinfo where the origin are stored. Note that the start location for the Z (3rd) dimension change with the change is the slice. The origin is in the upper left corner and we are using the right hand rule. + x -> left to right; + y -> top to bottom and + z -> into screen.

updateResolInfo

private void updateResolInfo()

Gives the image new resolutions.

initResFactor

protected static float[] initResFactor(float[] imgResols,
 int[] imgUnits)

Get the resolution correction needed for non-isotropic images.

Parameters:

imgResols - the image resolution

imgUnits - the image units of measure

Returns:

the resolution correction factor in the x (the first element) and y (the second element) dimensions

updateTalairachInfo

private void updateTalairachInfo()

updates the talairach transform info.

updateTransformInfo

private void updateTransformInfo(TransMatrix tMat)

Applies the values in the JTabbedPane "Transform" to the transform matrix in the image. Note that there are no visual changes made to the image itself.

Parameters:

tMat - DOCUMENT ME!

updateXMLLinkedFile

private void updateXMLLinkedFile()

method to update the xml file infos with a new linked image path.