medusa.display

Class EditableGraphPanel

java.lang.Object

java.awt.Component

java.awt.Container

javax.swing.JComponent

javax.swing.JPanel

medusa.display.BasicGraphRenderer

medusa.display.BasicGraphPanel

medusa.display.EditableGraphPanel

All Implemented Interfaces:

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

Direct Known Subclasses:

AnimatedGraphPanel

public class EditableGraphPanel
extends BasicGraphPanel

Describe class EditableGraphPanel here. This class extends BasicGraphPanel and allows mouse interactions, and also data manipulation.

See Also:

Serialized Form

Nested Class Summary

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

javax.swing.JComponent.AccessibleJComponent

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

java.awt.Component.BaselineResizeBehavior

Field Summary

Fields

Modifier and Type	Field and Description
static int	EXTREME_BOTTOM
static int	EXTREME_LEFT
static int	EXTREME_RIGHT
static int	EXTREME_TOP
boolean	showBorder

Fields inherited from class medusa.display.BasicGraphPanel

offset, running

Fields inherited from class medusa.display.BasicGraphRenderer

alpha, arrow, basicEdgeColor, dims, fontColor, fontSize, graph, hideWhenMove, label, nodeFont, nodeSize, pretty, showAnnotation, showConfidence

Fields inherited from class javax.swing.JComponent

TOOL_TIP_TEXT_KEY, 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

Constructors

Constructor and Description
EditableGraphPanel() Constructor with default settings
EditableGraphPanel(MedusaSettings stringSettings) Constructor with settings

Method Summary

Modifier and Type	Method and Description
void	addGradientX(int channel)
void	addGradientY(int channel)
void	addGraph(Graph g)
void	alignNodes(int align)
void	appendGraph(java.lang.String fileName)
void	clearGraph()
void	clearImage()
void	copyGraphSettings(java.lang.String fileName)
void	copyNodeSettings(Graph g)
void	crop(double confidence)
void	drawBackgroundImage(java.awt.Graphics2D g2d)
Node	getExtremeNode(int extreme, java.util.List<Node> nodes)
java.util.ArrayList	getFixed()
void	growSelection()
void	handleReleaseRightButton(java.awt.event.MouseEvent e)
void	initShow()
void	loadGraph(java.lang.String fileName)
void	manipulateColor(int a, int b, boolean doSwitch)
void	markNode(java.awt.Graphics2D g2d, Node markedNode)
void	mouseDragged(java.awt.event.MouseEvent e)
void	mousePressed(java.awt.event.MouseEvent e)
void	mouseReleased(java.awt.event.MouseEvent e)
void	paintComponent(java.awt.Graphics g) Paints the component
void	paintEdge(java.awt.Graphics2D g, Edge e)
void	paintNet(java.awt.Graphics2D g2d) Paints nodes and edges
void	paintVisibleNet(java.awt.Graphics2D g2d)
void	removeEdgeByLabel(java.lang.String label)
void	removeFixedNodes()
void	saveGraph(java.lang.String fileName)
void	saveImage(java.lang.String path, int param) Saves graph as an image
int	selectNodeByRegExp(java.lang.String regexp, boolean label)
int	selectNodeFromFile(java.lang.String fileName) Reads a file of node names and selected those nodes in the graph.
void	setHideEdge(int i, boolean b)
void	setImage() Sets the default image
void	setImage(java.awt.image.BufferedImage myImage)
void	setImage(java.lang.String imageURL) Sets the background image
void	setShape(int shape) Sets the shape for fixed nodes
void	setShowBorder(boolean show)
void	setShowEdge(int i, boolean b) Shows the interaction type i
void	setShowName(boolean b) Switches between showing node name and annotation
void	subtractGraph(java.lang.String fileName)
void	writeArena3D(java.lang.String fileName)
void	writeBiolayout(java.lang.String fileName)
void	writeCytoscape(java.lang.String fileName)
void	writeEPS(java.lang.String fileName)
void	writeGraphViz(java.lang.String fileName)
void	writePajek(java.lang.String fileName)
void	writePS(java.lang.String fileName)

Methods inherited from class medusa.display.BasicGraphPanel

autoFixOrientation, calculateEdgeLength, changeFont, changeNodeColor, changeNodeColor, colorToString, energy, findLabel, getColor, getCurrentRect, getEdgeLen, getPick, getToolTipText, getVisibleGraph, handleLeftMouseDragged, handlePressLeftButton_backup, handlePressLeftButton, initEdges, invertFix, isBox, isRunning, mirror, mouseClicked, mouseEntered, mouseExited, mouseMoved, paintPick, randomGraph, rotate, run, setAbsoluteScale, setAlpha, setAnnotation, setArrows, setBackgroundColor, setBasicEdgeColor, setColor, setConfidence, setCool, setEdgeLen, setFix, setFontColor, setGraph, setHideWhenMove, setLabel, setNodeFixed, setNodeSize, setPretty, setScale, setTimeFrameXY, setTimeFrameXY, start, stop, updateNodes, updateStringSettings

Methods inherited from class medusa.display.BasicGraphRenderer

clear, getCurrentNodeColorSet, getFontColor, getGraph, getGraphData, getMinimumSize, getNodeColorSet, getPanelHeight, getPanelWidth, getPreferredSize, getStringSettings, paintNode, setCurrentNodeColorSet, setNodeColorSet, setPanelHeight, setPanelWidth, setStringSettings

Methods inherited from class javax.swing.JPanel

getAccessibleContext, getUI, getUIClassID, setUI, updateUI

Methods inherited from class javax.swing.JComponent

addAncestorListener, addNotify, addVetoableChangeListener, computeVisibleRect, contains, createToolTip, disable, enable, firePropertyChange, firePropertyChange, firePropertyChange, getActionForKeyStroke, getActionMap, getAlignmentX, getAlignmentY, getAncestorListeners, getAutoscrolls, getBaseline, getBaselineResizeBehavior, getBorder, getBounds, getClientProperty, getComponentPopupMenu, getConditionForKeyStroke, getDebugGraphicsOptions, getDefaultLocale, getFontMetrics, getGraphics, getHeight, getInheritsPopupMenu, getInputMap, getInputMap, getInputVerifier, getInsets, getInsets, getListeners, getLocation, getMaximumSize, getNextFocusableComponent, getPopupLocation, getRegisteredKeyStrokes, getRootPane, getSize, getToolTipLocation, getToolTipText, getTopLevelAncestor, getTransferHandler, getVerifyInputWhenFocusTarget, getVetoableChangeListeners, getVisibleRect, getWidth, getX, getY, grabFocus, hide, isDoubleBuffered, isLightweightComponent, isManagingFocus, isOpaque, isOptimizedDrawingEnabled, isPaintingForPrint, isPaintingTile, isRequestFocusEnabled, isValidateRoot, paint, paintImmediately, paintImmediately, print, printAll, putClientProperty, registerKeyboardAction, registerKeyboardAction, removeAncestorListener, removeNotify, removeVetoableChangeListener, repaint, repaint, requestDefaultFocus, requestFocus, requestFocus, 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, setVerifyInputWhenFocusTarget, setVisible, unregisterKeyboardAction, update

Methods inherited from class java.awt.Container

add, add, add, add, add, addContainerListener, 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, remove, remove, removeAll, removeContainerListener, setComponentZOrder, setFocusCycleRoot, setFocusTraversalPolicy, setFocusTraversalPolicyProvider, setLayout, transferFocusDownCycle, validate

Methods inherited from class java.awt.Component

action, add, addComponentListener, addFocusListener, addHierarchyBoundsListener, addHierarchyListener, addInputMethodListener, addKeyListener, addMouseListener, addMouseMotionListener, addMouseWheelListener, bounds, checkImage, checkImage, contains, createImage, createImage, createVolatileImage, createVolatileImage, dispatchEvent, enable, enableInputMethods, 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, 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, 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, transferFocusBackward, transferFocusUpCycle

Methods inherited from class java.lang.Object

equals, getClass, hashCode, notify, notifyAll, wait, wait, wait

Field Detail

showBorder

public boolean showBorder

EXTREME_LEFT

public static int EXTREME_LEFT

EXTREME_RIGHT

public static int EXTREME_RIGHT

EXTREME_TOP

public static int EXTREME_TOP

EXTREME_BOTTOM

public static int EXTREME_BOTTOM

Constructor Detail

EditableGraphPanel

public EditableGraphPanel(MedusaSettings stringSettings)

Constructor with settings

Parameters:

stringSettings - settings

EditableGraphPanel

public EditableGraphPanel()

Constructor with default settings

Method Detail

setImage

public void setImage()
              throws java.io.IOException

Sets the default image

Throws:

java.io.IOException - if default file

setImage

public void setImage(java.lang.String imageURL)
              throws java.io.IOException

Sets the background image

Parameters:

imageURL - path to image

Throws:

java.io.IOException - if image is not found or cannot be read.

setImage

public void setImage(java.awt.image.BufferedImage myImage)
              throws java.lang.InterruptedException

Parameters:

myImage -

Throws:

java.lang.InterruptedException

clearImage

public void clearImage()

drawBackgroundImage

public void drawBackgroundImage(java.awt.Graphics2D g2d)

paintEdge

public void paintEdge(java.awt.Graphics2D g,
                      Edge e)

Overrides:

paintEdge in class BasicGraphRenderer

setShowBorder

public void setShowBorder(boolean show)

paintNet

public void paintNet(java.awt.Graphics2D g2d)

Description copied from class: BasicGraphRenderer

Paints nodes and edges

Overrides:

paintNet in class BasicGraphRenderer

Parameters:

g2d - Graphics2D g2d

saveImage

public void saveImage(java.lang.String path,
                      int param)

Description copied from class: BasicGraphPanel

Saves graph as an image

Overrides:

saveImage in class BasicGraphPanel

Parameters:

path - file to save as

param - type of picture. Currently, 0=jpg 1=png

paintComponent

public void paintComponent(java.awt.Graphics g)

Paints the component

Overrides:

paintComponent in class BasicGraphPanel

Parameters:

g - current graphics

paintVisibleNet

public void paintVisibleNet(java.awt.Graphics2D g2d)

setShowName

public void setShowName(boolean b)

Switches between showing node name and annotation

Parameters:

b - true if names are to be shown, false if annotation

mouseDragged

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

Specified by:

mouseDragged in interface java.awt.event.MouseMotionListener

Overrides:

mouseDragged in class BasicGraphPanel

handleReleaseRightButton

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

mouseReleased

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

Specified by:

mouseReleased in interface java.awt.event.MouseListener

Overrides:

mouseReleased in class BasicGraphPanel

mousePressed

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

Specified by:

mousePressed in interface java.awt.event.MouseListener

Overrides:

mousePressed in class BasicGraphPanel

initShow

public void initShow()

setShowEdge

public void setShowEdge(int i,
                        boolean b)

Shows the interaction type i

Parameters:

i - interaction type to show

b - true: paint interaction type. false: hide interaction type

setHideEdge

public void setHideEdge(int i,
                        boolean b)

setShape

public void setShape(int shape)

Sets the shape for fixed nodes

Parameters:

shape - 0-3: implemented shapes in PaintTools

getFixed

public java.util.ArrayList getFixed()

copyNodeSettings

public void copyNodeSettings(Graph g)

removeEdgeByLabel

public void removeEdgeByLabel(java.lang.String label)

removeFixedNodes

public void removeFixedNodes()

crop

public void crop(double confidence)

markNode

public void markNode(java.awt.Graphics2D g2d,
                     Node markedNode)

selectNodeByRegExp

public int selectNodeByRegExp(java.lang.String regexp,
                              boolean label)

selectNodeFromFile

public int selectNodeFromFile(java.lang.String fileName)
                       throws java.io.IOException

Reads a file of node names and selected those nodes in the graph.

Parameters:

fileName -

Returns:

Throws:

java.io.IOException

manipulateColor

public void manipulateColor(int a,
                            int b,
                            boolean doSwitch)

addGradientX

public void addGradientX(int channel)

addGradientY

public void addGradientY(int channel)

clearGraph

public void clearGraph()

loadGraph

public void loadGraph(java.lang.String fileName)
               throws java.io.IOException,
                      DataFormatException

Throws:

java.io.IOException

DataFormatException

saveGraph

public void saveGraph(java.lang.String fileName)
               throws java.io.IOException

Throws:

java.io.IOException

writePajek

public void writePajek(java.lang.String fileName)
                throws java.io.IOException

Throws:

java.io.IOException

writeArena3D

public void writeArena3D(java.lang.String fileName)
                  throws java.io.IOException

Throws:

java.io.IOException

writeCytoscape

public void writeCytoscape(java.lang.String fileName)
                    throws java.io.IOException

Throws:

java.io.IOException

writeGraphViz

public void writeGraphViz(java.lang.String fileName)
                   throws java.io.IOException

Throws:

java.io.IOException

writeBiolayout

public void writeBiolayout(java.lang.String fileName)
                    throws java.io.IOException

Throws:

java.io.IOException

writePS

public void writePS(java.lang.String fileName)
             throws java.io.IOException

Throws:

java.io.IOException

writeEPS

public void writeEPS(java.lang.String fileName)
              throws java.io.IOException

Throws:

java.io.IOException

appendGraph

public void appendGraph(java.lang.String fileName)
                 throws java.io.IOException,
                        DataFormatException

Throws:

java.io.IOException

DataFormatException

subtractGraph

public void subtractGraph(java.lang.String fileName)
                   throws java.io.IOException,
                          DataFormatException

Throws:

java.io.IOException

DataFormatException

copyGraphSettings

public void copyGraphSettings(java.lang.String fileName)
                       throws java.io.IOException,
                              DataFormatException

Throws:

java.io.IOException

DataFormatException

addGraph

public void addGraph(Graph g)

growSelection

public void growSelection()

alignNodes

public void alignNodes(int align)

getExtremeNode

public Node getExtremeNode(int extreme,
                           java.util.List<Node> nodes)