gov.lbl.genome.gui
Class GeneralGraphView

java.lang.Object
  java.awt.Component
      java.awt.Container
          javax.swing.JComponent
              javax.swing.JPanel
                  gov.lbl.genome.gui.panel.VGBPanel
                      gov.lbl.genome.gui.GeneralGraphView

All Implemented Interfaces:

java.awt.image.ImageObserver, java.awt.MenuContainer, java.awt.print.Printable, java.io.Serializable, javax.accessibility.Accessible

public class GeneralGraphView
extends VGBPanel

Title: GeneralGraphView

Description: This is the view of a graph.

Copyright: Copyright (c) 2002 Ernest Orlando Lawrence Berkeley National Laboratory

Company: LBNL

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.BltBufferStrategy, java.awt.Component.FlipBufferStrategy

Field Summary

protected AxisPanel	axisPanel
protected java.util.Vector	children
protected ContigPanel	contigPanel
protected java.util.Collection	curveViews
protected static int	DEFAULT_GRAPH_VIEW_HEIGHT
protected static int	DEFAULT_GRAPH_WIDTH
protected DisplayPanel	dp
protected GeneralGraphComp	graph
protected GeneralGraphComp[]	graphs
protected java.awt.image.BufferedImage	image
protected VistaLabel	lblMaxY
protected VistaLabel	lblMinY
protected VistaLabel	lblName
java.lang.String	maxProc
java.lang.String	minProc
protected GeneralGraphModel	model
protected GeneralGraphView	newGraphView
protected GeneralGraphView	parent
protected VGBPanel	pnlContainer
protected VGBPanel	pnlContig
protected VGBPanel	pnlGraph
protected VGBPanel[]	pnlGraphs
protected VGBPanel	pnlName
protected VGBPanel[]	pnlNames
protected VGBPanel	pnlYAxis
protected VGBPanel[]	pnlYAxiss
protected boolean	selected
protected java.text.NumberFormat	yUnitsFormat

Fields inherited from class gov.lbl.genome.gui.panel.VGBPanel

commonParameters, debug, lineNumber, name, parameters, va

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.print.Printable

NO_SUCH_PAGE, PAGE_EXISTS

Fields inherited from interface java.awt.image.ImageObserver

ABORT, ALLBITS, ERROR, FRAMEBITS, HEIGHT, PROPERTIES, SOMEBITS, WIDTH

Constructor Summary

GeneralGraphView(VistaApp vapp, GeneralGraphModel model, java.text.NumberFormat yUnitsFormat)
create parent GeneralGraphView

GeneralGraphView(VistaApp vapp, GeneralGraphModel model, java.text.NumberFormat yUnitsFormat, int i)
create child GeneralGraphView

Method Summary

void	addCurve(CurveView curve) add Curve
void	checkVisible() If graph vie contains invisible curve, then the graph view will be marked as invisible
void	clearChildren() remove Children
java.awt.Graphics2D	createImage() create transparent Image if the graph view is not selected and semi-transparent gray bar if the graph view is selected
void	flipSelected() reverse selection
ContigPanel	getContigPanel() return Contig Panel
java.util.Iterator	getCurveViews() return Curve Views
GeneralGraphView	getGeneralGraphView(int i, int number) create child GeneralGraphView
GeneralGraphComp	getGraphComp() return GeneralGraphComp
double	getGraphHeight() return Graph Height
GeneralGraphModel	getGraphModel() return Graph Model
java.lang.String	getGraphName() return Name
int	getGraphPos() return position of the graph view in the display panel
double	getGraphWidth() return Graph Width
java.lang.String	getLongName() return Long Name
java.util.Vector	getStatistics() return Statistics
boolean	isSelected() return true if selected
boolean	isVisible() return true if visible
void	paintComponent(java.awt.Graphics g) paint graph view
void	refresh(long minX, long maxX) refresh all curves
void	removeCompImage() remove Comp Image and contig Image
void	removeImage() remove Images
void	select() select the graph view
void	selectChildren() select all Children
void	setContigs(java.util.Vector cont) set Contigs
void	setGraphModel(GeneralGraphModel gm) set Graph Model
void	setGraphPos(int pos) set position of the graph view in the display panel
void	setName(java.lang.String name) set Name
void	setParent(GeneralGraphView p) set Parent
void	setSelected(boolean s) set Selected
void	setVisible(boolean visible) set Visible mode
java.lang.String	toString() return graph name
protected void	uiInit() build graph view
boolean	unselect() unselect the graph view
void	unselectChildren() unselect all Children

Methods inherited from class gov.lbl.genome.gui.panel.VGBPanel

Debug, dispatch, dispatchEvent, findParentFrame, print

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, getPreferredSize, 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, 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, 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, setSize, setSize, show, show, size, transferFocus, transferFocusUpCycle

Methods inherited from class java.lang.Object

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

Field Detail

model

protected GeneralGraphModel model

graph

protected GeneralGraphComp graph

graphs

protected GeneralGraphComp[] graphs

newGraphView

protected GeneralGraphView newGraphView

curveViews

protected java.util.Collection curveViews

dp

protected DisplayPanel dp

DEFAULT_GRAPH_WIDTH

protected static final int DEFAULT_GRAPH_WIDTH

See Also:

Constant Field Values

DEFAULT_GRAPH_VIEW_HEIGHT

protected static final int DEFAULT_GRAPH_VIEW_HEIGHT

See Also:

Constant Field Values

parent

protected GeneralGraphView parent

children

protected java.util.Vector children

image

protected java.awt.image.BufferedImage image

minProc

public java.lang.String minProc

maxProc

public java.lang.String maxProc

pnlName

protected VGBPanel pnlName

pnlYAxis

protected VGBPanel pnlYAxis

pnlNames

protected VGBPanel[] pnlNames

pnlYAxiss

protected VGBPanel[] pnlYAxiss

pnlGraph

protected VGBPanel pnlGraph

pnlGraphs

protected VGBPanel[] pnlGraphs

pnlContig

protected VGBPanel pnlContig

pnlContainer

protected VGBPanel pnlContainer

lblName

protected VistaLabel lblName

lblMinY

protected VistaLabel lblMinY

lblMaxY

protected VistaLabel lblMaxY

axisPanel

protected AxisPanel axisPanel

contigPanel

protected ContigPanel contigPanel

yUnitsFormat

protected java.text.NumberFormat yUnitsFormat

selected

protected boolean selected

Constructor Detail

GeneralGraphView

public GeneralGraphView(VistaApp vapp,
                        GeneralGraphModel model,
                        java.text.NumberFormat yUnitsFormat)

create parent GeneralGraphView

Parameters:

vapp - VistaApp

model - GeneralGraphModel

yUnitsFormat - NumberFormat

GeneralGraphView

public GeneralGraphView(VistaApp vapp,
                        GeneralGraphModel model,
                        java.text.NumberFormat yUnitsFormat,
                        int i)

create child GeneralGraphView

Parameters:

vapp - VistaApp

model - GeneralGraphModel

yUnitsFormat - NumberFormat

i - int

Method Detail

getGeneralGraphView

public GeneralGraphView getGeneralGraphView(int i,
                                            int number)

create child GeneralGraphView

Parameters:

i - int line number

number - int

Returns:

GeneralGraphView

clearChildren

public void clearChildren()

remove Children

selectChildren

public void selectChildren()

select all Children

unselectChildren

public void unselectChildren()

unselect all Children

setParent

public void setParent(GeneralGraphView p)

set Parent

Parameters:

p - GeneralGraphView

uiInit

protected void uiInit()

build graph view

setName

public void setName(java.lang.String name)

set Name

Overrides:

setName in class java.awt.Component

Parameters:

name - String

addCurve

public void addCurve(CurveView curve)

add Curve

Parameters:

curve - CurveView

getCurveViews

public java.util.Iterator getCurveViews()

return Curve Views

Returns:

Iterator

setContigs

public void setContigs(java.util.Vector cont)

set Contigs

Parameters:

cont - Vector

getGraphWidth

public double getGraphWidth()

return Graph Width

Returns:

double

getGraphHeight

public double getGraphHeight()

return Graph Height

Returns:

double

getGraphModel

public GeneralGraphModel getGraphModel()

return Graph Model

Returns:

GeneralGraphModel

setGraphModel

public void setGraphModel(GeneralGraphModel gm)

set Graph Model

Parameters:

gm - GeneralGraphModel

getGraphComp

public GeneralGraphComp getGraphComp()

return GeneralGraphComp

Returns:

GeneralGraphComp

flipSelected

public void flipSelected()

reverse selection

select

public void select()

select the graph view

unselect

public boolean unselect()

unselect the graph view

Returns:

boolean

isSelected

public boolean isSelected()

return true if selected

Returns:

boolean

setSelected

public void setSelected(boolean s)

set Selected

Parameters:

s - boolean

paintComponent

public void paintComponent(java.awt.Graphics g)

paint graph view

Overrides:

paintComponent in class javax.swing.JComponent

Parameters:

g - Graphics

getGraphName

public java.lang.String getGraphName()

return Name

Returns:

String

See Also:

GeneralGraphModel.getName()

getLongName

public java.lang.String getLongName()

return Long Name

Returns:

String

See Also:

GeneralGraphModel.getLongName()

getGraphPos

public int getGraphPos()

return position of the graph view in the display panel

Returns:

int

setGraphPos

public void setGraphPos(int pos)

set position of the graph view in the display panel

Parameters:

pos - int

refresh

public void refresh(long minX,
                    long maxX)

refresh all curves

Parameters:

minX - long

maxX - long

See Also:

CurveView.refresh(long,long), AbstractCurveView.refresh(long,long)

toString

public java.lang.String toString()

return graph name

Overrides:

toString in class java.awt.Component

Returns:

String

createImage

public java.awt.Graphics2D createImage()

create transparent Image if the graph view is not selected and semi-transparent gray bar if the graph view is selected

Returns:

Graphics2D

removeImage

public void removeImage()

remove Images

removeCompImage

public void removeCompImage()

remove Comp Image and contig Image

getContigPanel

public ContigPanel getContigPanel()

return Contig Panel

Returns:

ContigPanel

getStatistics

public java.util.Vector getStatistics()

return Statistics

Returns:

Vector

See Also:

VistaCurveView.getStatistics()

setVisible

public void setVisible(boolean visible)

set Visible mode

Overrides:

setVisible in class javax.swing.JComponent

Parameters:

visible - boolean

isVisible

public boolean isVisible()

return true if visible

Overrides:

isVisible in class java.awt.Component

Returns:

boolean

checkVisible

public void checkVisible()

If graph vie contains invisible curve, then the graph view will be marked as invisible

See Also:

setVisible(boolean)