Seg2Dgel
Class Sg2viewImage

java.lang.Object
  java.awt.Component
      java.awt.Container
          javax.swing.JComponent
              javax.swing.JPanel
                  Seg2Dgel.Sg2viewImage

All Implemented Interfaces:

java.awt.event.MouseListener, java.awt.event.MouseMotionListener, java.awt.image.ImageObserver, java.awt.MenuContainer, java.io.Serializable, java.util.EventListener, javax.accessibility.Accessible

public class Sg2viewImage
extends javax.swing.JPanel
implements java.awt.event.MouseListener, java.awt.event.MouseMotionListener

Class Sg2viewImage implements a popup GUI to show images used in the 2D Gel Spot Segmenter and an associated histogram GUI.

Refactored from Sg2viewImage By Greg Thornwall, SAIC.

This work was produced by Peter Lemkin of the National Cancer Institute, an agency of the United States Government. As a work of the United States Government there is no associated copyright. It is offered as open source software under the Mozilla Public License (version 1.1) subject to the limitations noted in the accompanying LEGAL file. This notice must be included with the code. The Open2Dprot Mozilla and Legal files are available on http://Open2Dprot.sourceforge.net/.

Version:

$Date: 2005/10/23 12:44:55 $ $Revision: 1.9 $

Author:

P. Lemkin, NCI-Frederick, Frederick, MD, 21702

See Also:

Open2Dprot Home, 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.BltBufferStrategy, java.awt.Component.FlipBufferStrategy

Field Summary

CalibrateOD	cal instance of calibrate
(package private) int	cHeight canvas height
(package private) int	cWidth canvas width
Roi	cwRoi ROI for computing window
Roi	dbRoi Debugging window for -debug: window
DbSample	dbSample instance of current sample
(package private) static int	DIST_THR Distance threshold in pixels from mouse (x,y) to spot centroid to find spot
DrawOverlays	dol instance of DrawOverlays
Roi	dpRoi Debugging window for -pixdump: window
static boolean	ENABLE_ZOOM Enable zoom of images
static int	HIST_HEIGHT Height of the histogram
static int	HIST_WIDTH Width of the histogram
static int	IS_HEIGHT Height of the img scroller
static int	IS_WIDTH Width of the img scroller
int	MAX_ROI max roi
int	maxRoi
(package private) static int	NCOLS
int	nPixels The pixWidth*pixHeight
(package private) static int	NROWS size of the text area in characters
int	paintCtr for debugging
int	pixHeight pixel height
int	pixWidth pixel width
int	ROI_CW
int	ROI_DBUG
int	ROI_ND
int	ROI_NONE
int	ROI_PIXDUMP
int	roiCode code for specific ROI overlays
RoiList	roiList list of ROIs for drawing
java.lang.String	roiName name for show ROI CW overlay
Roi	roiND ""ND",ROI_ND instance
(package private) static long	serialVersionUID frame id
Seg2Dgel	sg2 instance of main class
ScrollableImage	si scroller for image display
Sg2showImage	sig popup Image viewer GUI
int	VIEW_HEIGHT Height of the frame with and without histogram
int	viewHeight
int	viewWidth
int	xImg image address (x,y)+(xBase,yBase)
int	yImg image address (x,y)+(xBase,yBase)

Fields inherited from class javax.swing.JComponent

accessibleContext, 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

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

Sg2viewImage(Seg2Dgel sg2, java.awt.Image img, int cWidth, int cHeight, Roi cwRoi, Roi roiND, Roi dbRoi, Roi dpRoi, int roiCode)
Sg2viewImage() - Constructor

Method Summary

boolean	checkHistActiveBinFilter(DbSpot s) checkHistActiveBinFilter() - test if the histogram active bin is selected and histogram spot filtering is enabled.
void	close() close() - close this popup and reset flags
void	createRoi(Roi cwRoi, Roi dbRoi, Roi dpRoi, Roi roiND, int roiCode) createRoi() - Setup a list of ROIs to pass down to ScrollableImage The ROI assignments are:
void	drawOverLays(java.awt.Graphics g, java.awt.Image imgToDraw, int w, int h) drawOverLays() - paint the scrollable image canvas which includes the image, optional ROI's, overlay spots, optional histogram that is repainted in another class.
java.awt.Dimension	getPreferredSize() getPreferredSize() - getPreferredSize, needed for sizing frame and ScrollPane correctly.
void	mouseClicked(java.awt.event.MouseEvent e)
void	mouseDragged(java.awt.event.MouseEvent e) mouseDragged() - display data
void	mouseEntered(java.awt.event.MouseEvent e)
void	mouseExited(java.awt.event.MouseEvent e)
void	mouseMoved(java.awt.event.MouseEvent e)
void	mousePressed(java.awt.event.MouseEvent e) mousePressed() - display data,
void	mouseReleased(java.awt.event.MouseEvent e)
void	paintComponent(java.awt.Graphics g) paintComponent() - paint the scrollable image
boolean	resetImage(java.awt.Image img) resetImage() - set or reset images
void	resetRoiList(RoiList roiList) resetRoiList() - set or reset roi list
void	setInternalCanvas(java.awt.Image pImage, int w, int h) setInternalCanvas() -
void	setSingleROItoDisplay(int code) setSingleROItoDisplay() - set one ROI to be displayed
void	setZoom(int zoomValue) setZoom() - set the image size/zoom and create a new internalCanvas
(package private) java.lang.String	showImageMousePositions(int x, int y, java.awt.event.MouseEvent e, java.lang.String msgs) showImageMousePositions() - show the image mouse positions Only report if debugging...
void	windowActivated(java.awt.event.WindowEvent e)
void	windowClosed(java.awt.event.WindowEvent e)
void	windowClosing(java.awt.event.WindowEvent e) windowClosing() - closing down the window, get rid of the frame.
void	windowDeactivated(java.awt.event.WindowEvent e)
void	windowDeiconified(java.awt.event.WindowEvent e)
void	windowIconified(java.awt.event.WindowEvent e)
void	windowOpened(java.awt.event.WindowEvent e)

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, getBorder, getBounds, getClientProperty, getComponentGraphics, getComponentPopupMenu, getConditionForKeyStroke, getDebugGraphicsOptions, getDefaultLocale, getFontMetrics, getGraphics, getHeight, getInheritsPopupMenu, getInputMap, getInputMap, getInputVerifier, getInsets, getInsets, getListeners, getLocation, getMaximumSize, getMinimumSize, getNextFocusableComponent, getPopupLocation, getRegisteredKeyStrokes, getRootPane, getSize, getToolTipLocation, getToolTipText, getToolTipText, getTopLevelAncestor, getTransferHandler, getVerifyInputWhenFocusTarget, getVetoableChangeListeners, getVisibleRect, getWidth, getX, getY, grabFocus, isDoubleBuffered, isLightweightComponent, isManagingFocus, isOpaque, isOptimizedDrawingEnabled, isPaintingTile, isRequestFocusEnabled, isValidateRoot, paint, paintBorder, paintChildren, 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, transferFocusBackward, 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, getPeer, getPropertyChangeListeners, getPropertyChangeListeners, getSize, getToolkit, getTreeLock, gotFocus, handleEvent, hasFocus, hide, 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, resize, resize, setBounds, setBounds, setComponentOrientation, setCursor, setDropTarget, setFocusable, setFocusTraversalKeysEnabled, setIgnoreRepaint, setLocale, setLocation, setLocation, setName, setSize, setSize, show, show, size, toString, transferFocus, transferFocusUpCycle

Methods inherited from class java.lang.Object

clone, equals, finalize, getClass, hashCode, notify, notifyAll, wait, wait, wait

Field Detail

serialVersionUID

static final long serialVersionUID

frame id

See Also:

Constant Field Values

ENABLE_ZOOM

public static final boolean ENABLE_ZOOM

Enable zoom of images

See Also:

Constant Field Values

ROI_NONE

public final int ROI_NONE

See Also:

Constant Field Values

ROI_CW

public final int ROI_CW

See Also:

Constant Field Values

ROI_ND

public final int ROI_ND

See Also:

Constant Field Values

ROI_DBUG

public final int ROI_DBUG

See Also:

Constant Field Values

ROI_PIXDUMP

public final int ROI_PIXDUMP

See Also:

Constant Field Values

MAX_ROI

public final int MAX_ROI

max roi

See Also:

Constant Field Values

VIEW_HEIGHT

public final int VIEW_HEIGHT

Height of the frame with and without histogram

See Also:

Constant Field Values

HIST_WIDTH

public static final int HIST_WIDTH

Width of the histogram

See Also:

Constant Field Values

HIST_HEIGHT

public static final int HIST_HEIGHT

Height of the histogram

See Also:

Constant Field Values

IS_WIDTH

public static final int IS_WIDTH

Width of the img scroller

See Also:

Constant Field Values

IS_HEIGHT

public static final int IS_HEIGHT

Height of the img scroller

See Also:

Constant Field Values

NROWS

static final int NROWS

size of the text area in characters

See Also:

Constant Field Values

NCOLS

static final int NCOLS

See Also:

Constant Field Values

DIST_THR

static final int DIST_THR

Distance threshold in pixels from mouse (x,y) to spot centroid to find spot

See Also:

Constant Field Values

cwRoi

public Roi cwRoi

ROI for computing window

roiND

public Roi roiND

""ND",ROI_ND instance

dbRoi

public Roi dbRoi

Debugging window for -debug: window

dpRoi

public Roi dpRoi

Debugging window for -pixdump: window

roiName

public java.lang.String roiName

name for show ROI CW overlay

roiCode

public int roiCode

code for specific ROI overlays

sg2

public Seg2Dgel sg2

instance of main class

sig

public Sg2showImage sig

popup Image viewer GUI

cal

public CalibrateOD cal

instance of calibrate

dbSample

public DbSample dbSample

instance of current sample

si

public ScrollableImage si

scroller for image display

dol

public DrawOverlays dol

instance of DrawOverlays

viewWidth

public int viewWidth

viewHeight

public int viewHeight

nPixels

public int nPixels

The pixWidth*pixHeight

cWidth

int cWidth

canvas width

cHeight

int cHeight

canvas height

paintCtr

public int paintCtr

for debugging

pixHeight

public int pixHeight

pixel height

pixWidth

public int pixWidth

pixel width

xImg

public int xImg

image address (x,y)+(xBase,yBase)

yImg

public int yImg

image address (x,y)+(xBase,yBase)

roiList

public RoiList roiList

list of ROIs for drawing

maxRoi

public int maxRoi

Constructor Detail

Sg2viewImage

public Sg2viewImage(Seg2Dgel sg2,
                    java.awt.Image img,
                    int cWidth,
                    int cHeight,
                    Roi cwRoi,
                    Roi roiND,
                    Roi dbRoi,
                    Roi dpRoi,
                    int roiCode)

Sg2viewImage() - Constructor

Parameters:

img - image to be displayed

cWidth - canvas width

cHeight - canvas height

sg2 - instance of Seg2Dgel

cwRoi - computing window ROI

calCWroi - calibration wedge computing window ULHC coordinate x

dbRoi - Debugging window for -debug: window

dpRoi - Debugging window for -pixdump: window

roiCode - code for specific ROI overlays

Method Detail

getPreferredSize

public java.awt.Dimension getPreferredSize()

getPreferredSize() - getPreferredSize, needed for sizing frame and ScrollPane correctly.

Overrides:

getPreferredSize in class javax.swing.JComponent

Returns:

frame size

setSingleROItoDisplay

public void setSingleROItoDisplay(int code)

setSingleROItoDisplay() - set one ROI to be displayed

Parameters:

code - is the ROI_xxxx code found in Sg2showImage class

resetRoiList

public void resetRoiList(RoiList roiList)

resetRoiList() - set or reset roi list

Parameters:

roiList - roiList to set

createRoi

public void createRoi(Roi cwRoi,
                      Roi dbRoi,
                      Roi dpRoi,
                      Roi roiND,
                      int roiCode)

createRoi() - Setup a list of ROIs to pass down to ScrollableImage The ROI assignments are:

   No ROI code:                  ROI_NONE= 0
   computing Window ROI code:    ROI_CW= 1
   Step Wedge ROI code:          ROI_ND= 2
   Debugging region ROI code:    ROI_DBUG= 3
   Picture dump region ROI code: ROI_PIXDUMP= 4
   Working ROI code:             ROI_WORKING= 5

 The ROI_WORKING may then be copied to the CW, DBUG or
 PIXDUMP ROIs

Parameters:

cwRoi - computing window ROI

calCWroi - calibration wedge computing window ULHC coordinate x

dbRoi - Debugging window for -debug: window

dpRoi - Debugging window for -pixdump: window

roiCode - which one to store for display

resetImage

public boolean resetImage(java.awt.Image img)

resetImage() - set or reset images

Parameters:

new - image to use

setInternalCanvas

public void setInternalCanvas(java.awt.Image pImage,
                              int w,
                              int h)

setInternalCanvas() -

Parameters:

pImage - to use

image - with

w - pixel width

h - pixel height

setZoom

public void setZoom(int zoomValue)

setZoom() - set the image size/zoom and create a new internalCanvas

Parameters:

zoomValue -

close

public void close()

close() - close this popup and reset flags

windowClosing

public void windowClosing(java.awt.event.WindowEvent e)

windowClosing() - closing down the window, get rid of the frame.

Parameters:

e - is window closing event

See Also:

close()

windowOpened

public void windowOpened(java.awt.event.WindowEvent e)

windowActivated

public void windowActivated(java.awt.event.WindowEvent e)

windowClosed

public void windowClosed(java.awt.event.WindowEvent e)

windowDeactivated

public void windowDeactivated(java.awt.event.WindowEvent e)

windowDeiconified

public void windowDeiconified(java.awt.event.WindowEvent e)

windowIconified

public void windowIconified(java.awt.event.WindowEvent e)

checkHistActiveBinFilter

public boolean checkHistActiveBinFilter(DbSpot s)

checkHistActiveBinFilter() - test if the histogram active bin is selected and histogram spot filtering is enabled. If not testing !useFilterByBinFlag), then return true. We test for filterGEQactiveBinFlag for GEQ activeBin value, else it is LEQ activeBin value. If testing GEQ activeBin and histType spot feature GEQ activeBinValue else if testing LEQ activeBin and the histType spot feature is LEQ activeBinValue, then return true, else false.

Parameters:

s - is spot to test

Returns:

true if spot meets filter criteria. If activeBin is not selected then return true. Otherwise return false.

drawOverLays

public void drawOverLays(java.awt.Graphics g,
                         java.awt.Image imgToDraw,
                         int w,
                         int h)

drawOverLays() - paint the scrollable image canvas which includes the image, optional ROI's, overlay spots, optional histogram that is repainted in another class.

Parameters:

g - is graphics context.

paintComponent

public void paintComponent(java.awt.Graphics g)

paintComponent() - paint the scrollable image

Overrides:

paintComponent in class javax.swing.JComponent

Parameters:

g - is graphics context.

showImageMousePositions

final java.lang.String showImageMousePositions(int x,
                                               int y,
                                               java.awt.event.MouseEvent e,
                                               java.lang.String msgs)

showImageMousePositions() - show the image mouse positions Only report if debugging...

Parameters:

e - is mouse event

msgs - is message to display

x - is image object position

y - is image object position

mouseDragged

public void mouseDragged(java.awt.event.MouseEvent e)

mouseDragged() - display data

Specified by:

mouseDragged in interface java.awt.event.MouseMotionListener

Parameters:

e - is MouseEvent

mousePressed

public void mousePressed(java.awt.event.MouseEvent e)

mousePressed() - display data,

Specified by:

mousePressed in interface java.awt.event.MouseListener

Parameters:

e - is MouseEvent

mouseClicked

public void mouseClicked(java.awt.event.MouseEvent e)

Specified by:

mouseClicked in interface java.awt.event.MouseListener

mouseEntered

public void mouseEntered(java.awt.event.MouseEvent e)

Specified by:

mouseEntered in interface java.awt.event.MouseListener

mouseExited

public void mouseExited(java.awt.event.MouseEvent e)

Specified by:

mouseExited in interface java.awt.event.MouseListener

mouseReleased

public void mouseReleased(java.awt.event.MouseEvent e)

Specified by:

mouseReleased in interface java.awt.event.MouseListener

mouseMoved

public void mouseMoved(java.awt.event.MouseEvent e)

Specified by:

mouseMoved in interface java.awt.event.MouseMotionListener