edu.iastate.metnet.graphmodel
Class AbstractGraphMetaphor

java.lang.Object
  edu.iastate.metnet.graphmodel.AbstractGraphMetaphor

All Implemented Interfaces:

IGraphMetaphor

Direct Known Subclasses:

AbstractVersionGraphMetaphor, AlignmentMetaphor, CategoryMetaphor, ChemicalReactionMetaphor, ComparativeMetaphor, CompositionRelationMetaphor, DefaultGraphMetaphor, EditingMetaphor, FCMetaphor, IsomorphismMetaphor, PathwayElementMetaphor, SearchInteractionTypeMetaphor, SearchNameMetaphor, ValidityMetaphor

public class AbstractGraphMetaphor
extends java.lang.Object
implements IGraphMetaphor

abstract graph metaphor containing common utility functions and default behaviors.

Since:

6/25/04

Author:

Jie Li

Field Summary

protected static java.awt.Color	DEFAULT_BACKGROUND default background color
protected static java.awt.Color	DEFAULT_FOREGROUND default foreground color
protected static int	DEFAULT_LINE_WIDTH default line width for recovery
(package private) static org.apache.log4j.Logger	logger log4j facility

Constructor Summary

AbstractGraphMetaphor()
defualt constrcutor

Method Summary

protected void	autoSizeBox(org.jgraph.JGraph graph, java.lang.Object cell, org.jgraph.graph.CellView view) change the vertex size according to the content
protected void	changeEdgeColor(org.jgraph.JGraph graph, java.lang.Object cell, org.jgraph.graph.CellView view, java.awt.Color color) change the line color
protected void	changeEdgeDualColor(org.jgraph.JGraph graph, java.lang.Object cell, org.jgraph.graph.CellView view, java.awt.Color leftColor, java.awt.Color rightColor) change the line color to two parallel foreground color to indicate the different interaction type
protected void	changeEdgePattern(org.jgraph.JGraph graph, java.lang.Object cell, org.jgraph.graph.CellView view, float[] pattern) change the edge or border's line pattern
protected void	changeEdgeWidth(org.jgraph.JGraph graph, java.lang.Object cell, org.jgraph.graph.CellView view, float width) change the edge width
protected void	changeVertexBackgroundColor(org.jgraph.JGraph graph, java.lang.Object cell, org.jgraph.graph.CellView view, java.awt.Color color) set the normal background
protected void	changeVertexBorderColor(org.jgraph.JGraph graph, java.lang.Object cell, org.jgraph.graph.CellView view, java.awt.Color color) change the vertext border color
protected void	changeVertexBorderWidth(org.jgraph.JGraph graph, java.lang.Object cell, org.jgraph.graph.CellView view, float width) change the edge width
protected void	changeVertexDualColor(org.jgraph.JGraph graph, java.lang.Object cell, org.jgraph.graph.CellView view, java.awt.Color leftColor, java.awt.Color rightColor) things are complicated if we want two or more background color
protected void	changeVertexForegroundColor(org.jgraph.JGraph graph, java.lang.Object cell, org.jgraph.graph.CellView view, java.awt.Color color) change the font color in the vertex
static MetaphorTypeInformation	getEdgeType(Blockunit source, Blockunit target) searching rule: node A, and node B, edge (A, B) A and B both are entitywithcontext get the intersection of the interactions? require the entity join the interaction A is interaction and B is entitywithcontext type of A A is entitywithcontext and B is interaction see if catalysis A and B both are interaction, never occurred
protected java.util.List	getIncomingEdges(org.jgraph.JGraph graph, java.lang.Object cell, org.jgraph.graph.CellView view) get the incoming edges use CellView[] views = graph.getGraphLayoutCache().getMapping(cells); to get views
protected java.util.List	getIncomingNodes(org.jgraph.JGraph graph, java.lang.Object cell, org.jgraph.graph.CellView view) get the predecessor nodes
protected java.awt.Color	getInteractionColorForEdge(java.lang.String interactionType) get the color for interaction type
protected int	getInteractionWidthForEdge(java.lang.String interactionType) get the line width for interaction type
protected static java.util.Set	getIntersectionNodes(Blockunit source, Blockunit target) if the intermedia dummy node is removed already, guess the interaction from the two enity nodes
protected java.awt.Color	getLocationColorForVertex(java.lang.String location) return the vertext background color
protected java.util.List	getOutgoingEdges(org.jgraph.JGraph graph, java.lang.Object cell, org.jgraph.graph.CellView view) get outgoing edges from one node
protected java.util.List	getOutgoingNodes(org.jgraph.JGraph graph, java.lang.Object cell, org.jgraph.graph.CellView view) get the successor nodes
void	run(org.jgraph.JGraph graph, java.lang.Object[] cells) make the graph black and white

Methods inherited from class java.lang.Object

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

Field Detail

logger

static org.apache.log4j.Logger logger

log4j facility

DEFAULT_LINE_WIDTH

protected static final int DEFAULT_LINE_WIDTH

default line width for recovery

See Also:

Constant Field Values

DEFAULT_FOREGROUND

protected static final java.awt.Color DEFAULT_FOREGROUND

default foreground color

DEFAULT_BACKGROUND

protected static final java.awt.Color DEFAULT_BACKGROUND

default background color

Constructor Detail

AbstractGraphMetaphor

public AbstractGraphMetaphor()

defualt constrcutor

Method Detail

run

public void run(org.jgraph.JGraph graph,
                java.lang.Object[] cells)

make the graph black and white

Specified by:

run in interface IGraphMetaphor

Parameters:

graph - the jgraph instance

cells - the selected cells or all cells

changeVertexForegroundColor

protected void changeVertexForegroundColor(org.jgraph.JGraph graph,
                                           java.lang.Object cell,
                                           org.jgraph.graph.CellView view,
                                           java.awt.Color color)

change the font color in the vertex

Parameters:

graph - the graph

cell - the node

view - the node view

color - the font color

changeVertexDualColor

protected void changeVertexDualColor(org.jgraph.JGraph graph,
                                     java.lang.Object cell,
                                     org.jgraph.graph.CellView view,
                                     java.awt.Color leftColor,
                                     java.awt.Color rightColor)

things are complicated if we want two or more background color

Parameters:

graph - the graph

cell - the cell, vertex only

view - the view

leftColor - the left background color

rightColor - the right background color

changeEdgeDualColor

protected void changeEdgeDualColor(org.jgraph.JGraph graph,
                                   java.lang.Object cell,
                                   org.jgraph.graph.CellView view,
                                   java.awt.Color leftColor,
                                   java.awt.Color rightColor)

change the line color to two parallel foreground color to indicate the different interaction type

Parameters:

graph - the graph

cell - the edge

view - the edge view

leftColor - the left color

rightColor - the right color

changeVertexBackgroundColor

protected void changeVertexBackgroundColor(org.jgraph.JGraph graph,
                                           java.lang.Object cell,
                                           org.jgraph.graph.CellView view,
                                           java.awt.Color color)

set the normal background

Parameters:

graph - the graph

cell - the normal vertex

view - the view

color - the background color

autoSizeBox

protected void autoSizeBox(org.jgraph.JGraph graph,
                           java.lang.Object cell,
                           org.jgraph.graph.CellView view)

change the vertex size according to the content

Parameters:

graph - the graph

cell - the graph cell

view - the cell view

changeVertexBorderColor

protected void changeVertexBorderColor(org.jgraph.JGraph graph,
                                       java.lang.Object cell,
                                       org.jgraph.graph.CellView view,
                                       java.awt.Color color)

change the vertext border color

Parameters:

graph - the graph

cell - the graph cell

view - the cell view

color - the border color

changeEdgeColor

protected void changeEdgeColor(org.jgraph.JGraph graph,
                               java.lang.Object cell,
                               org.jgraph.graph.CellView view,
                               java.awt.Color color)

change the line color

Parameters:

graph - the graph

cell - the edge cell

view - the edge view

color - the line color

changeEdgeWidth

protected void changeEdgeWidth(org.jgraph.JGraph graph,
                               java.lang.Object cell,
                               org.jgraph.graph.CellView view,
                               float width)

change the edge width

Parameters:

graph - the graph

cell - the edge

view - the edge view

width - the width of the edge

changeVertexBorderWidth

protected void changeVertexBorderWidth(org.jgraph.JGraph graph,
                                       java.lang.Object cell,
                                       org.jgraph.graph.CellView view,
                                       float width)

change the edge width

Parameters:

graph - the graph

cell - the edge

view - the edge view

width - the width of the edge

changeEdgePattern

protected void changeEdgePattern(org.jgraph.JGraph graph,
                                 java.lang.Object cell,
                                 org.jgraph.graph.CellView view,
                                 float[] pattern)

change the edge or border's line pattern

Parameters:

graph - the graph

cell - the node or edge

view - the node or edge

pattern - the pattern for node border or edge line

getIncomingEdges

protected java.util.List getIncomingEdges(org.jgraph.JGraph graph,
                                          java.lang.Object cell,
                                          org.jgraph.graph.CellView view)

get the incoming edges use CellView[] views = graph.getGraphLayoutCache().getMapping(cells); to get views

Parameters:

graph - the graph

cell - the node

view - the node

Returns:

the incoming edge set

getIncomingNodes

protected java.util.List getIncomingNodes(org.jgraph.JGraph graph,
                                          java.lang.Object cell,
                                          org.jgraph.graph.CellView view)

get the predecessor nodes

Parameters:

graph - the graph

cell - the current node

view - the node view

Returns:

the predecessor nodes

getOutgoingEdges

protected java.util.List getOutgoingEdges(org.jgraph.JGraph graph,
                                          java.lang.Object cell,
                                          org.jgraph.graph.CellView view)

get outgoing edges from one node

Parameters:

graph - the graph

cell - start node

view - start node

Returns:

edge list

getOutgoingNodes

protected java.util.List getOutgoingNodes(org.jgraph.JGraph graph,
                                          java.lang.Object cell,
                                          org.jgraph.graph.CellView view)

get the successor nodes

Parameters:

graph - the graph

cell - the current nodes

view - the current node view

Returns:

the successor nodes

getLocationColorForVertex

protected java.awt.Color getLocationColorForVertex(java.lang.String location)

return the vertext background color

Parameters:

location -

Returns:

the color

getInteractionColorForEdge

protected java.awt.Color getInteractionColorForEdge(java.lang.String interactionType)

get the color for interaction type

Parameters:

interactionType - the interaction type

Returns:

the color

getInteractionWidthForEdge

protected int getInteractionWidthForEdge(java.lang.String interactionType)

get the line width for interaction type

Parameters:

width - for interaction type

Returns:

the width

getEdgeType

public static MetaphorTypeInformation getEdgeType(Blockunit source,
                                                  Blockunit target)

searching rule: node A, and node B, edge (A, B)
• A and B both are entitywithcontext get the intersection of the interactions? require the entity join the interaction
• A is interaction and B is entitywithcontext type of A
• A is entitywithcontext and B is interaction see if catalysis
• A and B both are interaction, never occurred

Parameters:

source - the source blockunit

target - the target blockunit

Returns:

the interaction type of the connection edge

getIntersectionNodes

protected static java.util.Set getIntersectionNodes(Blockunit source,
                                                    Blockunit target)

if the intermedia dummy node is removed already, guess the interaction from the two enity nodes

Parameters:

source - the source entitywithlocaion node

target - the target entitywithlocation nodes

Returns:

the intersection interaction node set