cytoscape.giny
Class PhoebeNetworkView

java.lang.Object
  coltginy.ColtGraphViewModel
      phoebe.PGraphView
          cytoscape.giny.PhoebeNetworkView

All Implemented Interfaces:

CyNetworkView, giny.view.GraphView

public class PhoebeNetworkView
extends phoebe.PGraphView
implements CyNetworkView

Nested Class Summary

Nested classes/interfaces inherited from class phoebe.PGraphView

phoebe.PGraphView.ChangeEvent

Field Summary

protected Map	clientData The ClientData map
protected FlagAndSelectionHandler	flagAndSelectionHandler The FlagAndSelectionHandler keeps the selection state of view objects inthe CyNetworkView nsync with the flagged state of those objects in the default flagger of the associated CyNetwork.
protected edu.umd.cs.piccolo.event.PBasicInputEventHandler	keyEventHandler
protected JLabel	statusLabel This is the label that tells how many node/edges are in a CyNetworkView and how many are selected/hidden
protected String	title This is the title of the NetworkView, it will be dispalyed in a Tab, or in a Window.
protected VisualStyle	vs

Fields inherited from class phoebe.PGraphView

contextMenu, contextMenuStore, DEFAULT_BACKGROUND_COLOR, EDGE_DEFAULTS, edgeHandler, edgeLayer, edgeSelection, edgeSelectionHandler, edgeSelectionList, edgeViewMap, firePiccoloEvents, graphEditEventHandler, isInitialized, NODE_DEFAULTS, nodeLayer, nodeSelection, nodeSelectionList, nodeViewMap, noEdgeSelection, noNodeSelection, objectLayer, pcs, phoebeGraphViewChangeEvent, selectionHandler, squiggleEventHandler, squiggleLayer, toolTipHandler, updateEdges, viewComponent

Fields inherited from class coltginy.ColtGraphViewModel

DEFAULT_BORDER_PAINT, DEFAULT_EDGE_END_PAINT, DEFAULT_EDGE_STROKE_PAINT, DEFAULT_EDGE_STROKE_PAINT_SELECTION, DEFAULT_NODE_PAINT, DEFAULT_NODE_SELECTION_PAINT, DEFAULT_X, DEFAULT_Y, edgeDataDescription, edgeDataStore, identifier, nodeDataDescription, nodeDataStore, perspective, viewDataStore

Fields inherited from interface giny.view.GraphView

EDGE_LINE_TYPE, EDGE_PAINT, EDGE_SELECTION_PAINT, EDGE_SOURCE_END_PAINT, EDGE_SOURCE_END_SELECTED_PAINT, EDGE_SOURCE_END_TYPE, EDGE_TARGET_END_PAINT, EDGE_TARGET_END_SELECTED_PAINT, EDGE_TARGET_END_TYPE, EDGE_WIDTH, NODE_BORDER_PAINT, NODE_BORDER_WIDTH, NODE_HEIGHT, NODE_LABEL, NODE_PAINT, NODE_SELECTION_PAINT, NODE_SHAPE, NODE_WIDTH, NODE_X_POSITION, NODE_Y_POSITION, NODE_Z_POSITION, SOURCE_INDEX, TARGET_INDEX

Constructor Summary

PhoebeNetworkView(CyNetwork network, String title)

Method Summary

void	applyLayout(LayoutAlgorithm layout) Applies the given layout to the entire CyNetworkView
void	applyLayout(LayoutAlgorithm layout, CyNode[] nodes, CyEdge[] edges) Applies the given layout to only the given Nodes and Edges
void	applyLayout(LayoutAlgorithm layout, CyNodeView[] nodes, CyEdgeView[] edges) Applies the given layout to only the given NodeViews and EdgeViews
void	applyLayout(LayoutAlgorithm layout, int[] nodes, int[] edges) Applies the given layout to only the given Nodes and Edges
void	applyLockedLayout(LayoutAlgorithm layout, CyNode[] nodes, CyEdge[] edges) Applies the given layout to the entire CyNetworkView, but locks the given Nodes and Edges in place
void	applyLockedLayout(LayoutAlgorithm layout, CyNodeView[] nodes, CyEdgeView[] edges) Applies the given layout to the entire CyNetworkView, but locks the given NodeViews and EdgeViews in place
void	applyLockedLayout(LayoutAlgorithm layout, int[] nodes, int[] edges) Applies the given layout to the entire CyNetworkView, but locks the given Nodes and Edges in place
boolean	applyVizMap(CyEdge edge) Applies the given edge to the given vizmapper
boolean	applyVizMap(CyEdge edge, VisualStyle style) Applies the given edge to the given vizmapper
boolean	applyVizMap(CyNode node) Applies the given node to the given vizmapper
boolean	applyVizMap(CyNode node, VisualStyle style) Applies the given node to the given vizmapper
boolean	applyVizMap(giny.view.EdgeView edge_view) Applies the given edge to the given vizmapper
boolean	applyVizMap(giny.view.EdgeView edge_view, VisualStyle style) Applies the given edge to the given vizmapper
boolean	applyVizMap(giny.view.NodeView node_view) Applies the given node to the given vizmapper
boolean	applyVizMap(giny.view.NodeView node_view, VisualStyle style) Applies the given node to the given vizmapper
void	applyVizmapper(VisualStyle style)
protected giny.view.EdgeView[]	convertToEdgeViews(int[] edges)
protected giny.view.NodeView[]	convertToNodeViews(int[] nodes)
protected giny.view.EdgeView[]	convertToViews(CyEdge[] edges)
protected giny.view.NodeView[]	convertToViews(CyNode[] nodes)
protected void	fireGraphViewChanged(phoebe.PGraphView.ChangeEvent event) Overwritten version of fireGraphViewChanged so that the label can be updated
Object	getClientData(String data_name) Get Some client data
Collection	getClientDataNames() Get a list of all currently available ClientData objects
protected giny.view.EdgeView[]	getInverseViews(giny.view.EdgeView[] given)
protected giny.view.NodeView[]	getInverseViews(giny.view.NodeView[] given)
CyNetwork	getNetwork() Returns the network displayed by this object.
String	getTitle() Returns the Title of this View
CyNetworkView	getView()
boolean	getVisualMapperEnabled()
VisualStyle	getVisualStyle()
VisualMappingManager	getVizMapManager()
VizMapUI	getVizMapUI()
protected void	initialize()
protected void	initializeEventHandlers()
void	putClientData(String data_name, Object data) Networks can support client data.
void	redrawGraph()
void	redrawGraph(boolean layout, boolean vizmap)
boolean	setSelected(CyEdge[] edges) Sets the Given edges Selected
boolean	setSelected(CyNode[] nodes) Sets the Given nodes Selected
boolean	setSelected(giny.view.EdgeView[] edge_views) Sets the Given edges Selected
boolean	setSelected(giny.view.NodeView[] node_views) Sets the Given nodes Selected
void	setTitle(String new_title) Sets the Title of this View
void	setVisualMapperEnabled(boolean state)
void	setVisualStyle(String VSName)
void	toggleVisualMapperEnabled()
void	updateStatusLabel() Resets the info label status bar text with the current number of nodes, edges, selected nodes, and selected edges.

Methods inherited from class phoebe.PGraphView

addContextMethod, addEdgeView, addEdgeView, addGraphViewChangeListener, addNodeView, addNodeView, addNodeView, addToEdgeLayer, addToNodeLayer, clearEdgeSelectionList, clearNodeSelectionList, createChangeEvent, createViewableObjects, disableEdgeSelection, disableNodeSelection, disablePanning, donePrinting, edgeCount, edgeSelected, edgeSelectionEnabled, edgeUnselected, enableEdgeSelection, enableNodeSelection, enablePanning, ensureEdgeSelectionCapacity, ensureNodeSelectionCapacity, fitContent, getBackgroundPaint, getBirdsEyeView, getCanvas, getChangeEvent, getComponent, getContextMethods, getContextMethods, getEdgeHandler, getEdgeLayer, getEdgeSelectionHandler, getEdgeView, getEdgeView, getEdgeViewCount, getEdgeViewsIterator, getEdgeViewsList, getEdgeViewsList, getEdgeViewsList, getHeight, getIdentifier, getNodeLayer, getNodeView, getNodeView, getNodeViewCount, getNodeViewsIterator, getNodeViewsList, getObjectLayer, getRootGraph, getSelectedEdgeIndices, getSelectedEdges, getSelectedNodeIndices, getSelectedNodes, getSelectionHandler, getSquiggleHandler, getWidth, getZoom, hideEdgeView, hideGraphObject, hideGraphObjects, hideNodeView, hideNodeView, initializePGraphView, listEdgeSelection, listSelection, nodeCount, nodeSelected, nodeSelectionEnabled, nodeUnselected, openNodeEditor, prepareToPrint, removeEdgeView, removeEdgeView, removeEdgeView, removeGraphViewChangeListener, removeNodeView, removeNodeView, removeNodeView, setBackgroundPaint, setIdentifier, setZoom, showEdgeView, showGraphObject, showGraphObjects, showNodeView, showNodeView, updateView

Methods inherited from class coltginy.ColtGraphViewModel

getAllEdgePropertyData, getAllNodePropertyData, getEdgeBooleanProperty, getEdgeDoubleProperty, getEdgeFloatProperty, getEdgeIntProperty, getEdgeObjectProperty, getGraphPerspective, getNodeBooleanProperty, getNodeDoubleProperty, getNodeFloatProperty, getNodeIntProperty, getNodeObjectProperty, setAllEdgePropertyData, setAllNodePropertyData, setEdgeBooleanProperty, setEdgeDoubleProperty, setEdgeFloatProperty, setEdgeIntProperty, setEdgeObjectProperty, setNodeBooleanProperty, setNodeDoubleProperty, setNodeFloatProperty, setNodeIntProperty, setNodeObjectProperty

Methods inherited from class java.lang.Object

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

Methods inherited from interface giny.view.GraphView

addContextMethod, addEdgeView, addEdgeView, addGraphViewChangeListener, addNodeView, addNodeView, addNodeView, disableEdgeSelection, disableNodeSelection, edgeCount, edgeSelectionEnabled, enableEdgeSelection, enableNodeSelection, fitContent, getAllEdgePropertyData, getAllNodePropertyData, getBackgroundPaint, getComponent, getContextMethods, getContextMethods, getEdgeBooleanProperty, getEdgeDoubleProperty, getEdgeFloatProperty, getEdgeIntProperty, getEdgeObjectProperty, getEdgeView, getEdgeView, getEdgeViewCount, getEdgeViewsIterator, getEdgeViewsList, getEdgeViewsList, getEdgeViewsList, getGraphPerspective, getIdentifier, getNodeBooleanProperty, getNodeDoubleProperty, getNodeFloatProperty, getNodeIntProperty, getNodeObjectProperty, getNodeView, getNodeView, getNodeViewCount, getNodeViewsIterator, getRootGraph, getSelectedEdgeIndices, getSelectedEdges, getSelectedNodeIndices, getSelectedNodes, getZoom, hideGraphObject, hideGraphObjects, nodeCount, nodeSelectionEnabled, removeEdgeView, removeEdgeView, removeEdgeView, removeGraphViewChangeListener, removeNodeView, removeNodeView, removeNodeView, setAllEdgePropertyData, setAllNodePropertyData, setBackgroundPaint, setEdgeBooleanProperty, setEdgeDoubleProperty, setEdgeFloatProperty, setEdgeIntProperty, setEdgeObjectProperty, setIdentifier, setNodeBooleanProperty, setNodeDoubleProperty, setNodeFloatProperty, setNodeIntProperty, setNodeObjectProperty, setZoom, showGraphObject, showGraphObjects, updateView

Field Detail

title

protected String title

This is the title of the NetworkView, it will be dispalyed in a Tab, or in a Window.

statusLabel

protected JLabel statusLabel

This is the label that tells how many node/edges are in a CyNetworkView and how many are selected/hidden

flagAndSelectionHandler

protected FlagAndSelectionHandler flagAndSelectionHandler

The FlagAndSelectionHandler keeps the selection state of view objects inthe CyNetworkView nsync with the flagged state of those objects in the default flagger of the associated CyNetwork.

clientData

protected Map clientData

The ClientData map

keyEventHandler

protected edu.umd.cs.piccolo.event.PBasicInputEventHandler keyEventHandler

vs

protected VisualStyle vs

Constructor Detail

PhoebeNetworkView

public PhoebeNetworkView(CyNetwork network,
                         String title)

Method Detail

initialize

protected void initialize()

setVisualStyle

public void setVisualStyle(String VSName)

Specified by:

setVisualStyle in interface CyNetworkView

getVisualStyle

public VisualStyle getVisualStyle()

Specified by:

getVisualStyle in interface CyNetworkView

initializeEventHandlers

protected void initializeEventHandlers()

Overrides:

initializeEventHandlers in class phoebe.PGraphView

getView

public CyNetworkView getView()

Specified by:

getView in interface CyNetworkView

getNetwork

public CyNetwork getNetwork()

Description copied from interface: CyNetworkView

Returns the network displayed by this object.

Specified by:

getNetwork in interface CyNetworkView

getTitle

public String getTitle()

Description copied from interface: CyNetworkView

Returns the Title of this View

Specified by:

getTitle in interface CyNetworkView

setTitle

public void setTitle(String new_title)

Description copied from interface: CyNetworkView

Sets the Title of this View

Specified by:

setTitle in interface CyNetworkView

redrawGraph

public void redrawGraph(boolean layout,
                        boolean vizmap)

Specified by:

redrawGraph in interface CyNetworkView

redrawGraph

public void redrawGraph()

toggleVisualMapperEnabled

public void toggleVisualMapperEnabled()

Specified by:

toggleVisualMapperEnabled in interface CyNetworkView

setVisualMapperEnabled

public void setVisualMapperEnabled(boolean state)

Specified by:

setVisualMapperEnabled in interface CyNetworkView

getVisualMapperEnabled

public boolean getVisualMapperEnabled()

Specified by:

getVisualMapperEnabled in interface CyNetworkView

getVizMapManager

public VisualMappingManager getVizMapManager()

Specified by:

getVizMapManager in interface CyNetworkView

getVizMapUI

public VizMapUI getVizMapUI()

Specified by:

getVizMapUI in interface CyNetworkView

putClientData

public void putClientData(String data_name,
                          Object data)

Networks can support client data.

Specified by:

putClientData in interface CyNetworkView

Parameters:

data_name - the name of this client data

getClientDataNames

public Collection getClientDataNames()

Get a list of all currently available ClientData objects

Specified by:

getClientDataNames in interface CyNetworkView

getClientData

public Object getClientData(String data_name)

Get Some client data

Specified by:

getClientData in interface CyNetworkView

Parameters:

data_name - the data to get

fireGraphViewChanged

protected void fireGraphViewChanged(phoebe.PGraphView.ChangeEvent event)

Overwritten version of fireGraphViewChanged so that the label can be updated

Overrides:

fireGraphViewChanged in class phoebe.PGraphView

updateStatusLabel

public void updateStatusLabel()

Resets the info label status bar text with the current number of nodes, edges, selected nodes, and selected edges.

applyVizMap

public boolean applyVizMap(CyEdge edge)

Applies the given edge to the given vizmapper

Specified by:

applyVizMap in interface CyNetworkView

applyVizMap

public boolean applyVizMap(giny.view.EdgeView edge_view)

Applies the given edge to the given vizmapper

Specified by:

applyVizMap in interface CyNetworkView

applyVizMap

public boolean applyVizMap(CyEdge edge,
                           VisualStyle style)

Applies the given edge to the given vizmapper

Specified by:

applyVizMap in interface CyNetworkView

applyVizMap

public boolean applyVizMap(giny.view.EdgeView edge_view,
                           VisualStyle style)

Applies the given edge to the given vizmapper

Specified by:

applyVizMap in interface CyNetworkView

applyVizMap

public boolean applyVizMap(CyNode node)

Applies the given node to the given vizmapper

Specified by:

applyVizMap in interface CyNetworkView

applyVizMap

public boolean applyVizMap(giny.view.NodeView node_view)

Applies the given node to the given vizmapper

Specified by:

applyVizMap in interface CyNetworkView

applyVizMap

public boolean applyVizMap(CyNode node,
                           VisualStyle style)

Applies the given node to the given vizmapper

Specified by:

applyVizMap in interface CyNetworkView

applyVizMap

public boolean applyVizMap(giny.view.NodeView node_view,
                           VisualStyle style)

Applies the given node to the given vizmapper

Specified by:

applyVizMap in interface CyNetworkView

applyVizmapper

public void applyVizmapper(VisualStyle style)

Specified by:

applyVizmapper in interface CyNetworkView

Parameters:

style - the visual style

applyLayout

public void applyLayout(LayoutAlgorithm layout)

Applies the given layout to the entire CyNetworkView

Specified by:

applyLayout in interface CyNetworkView

applyLockedLayout

public void applyLockedLayout(LayoutAlgorithm layout,
                              CyNode[] nodes,
                              CyEdge[] edges)

Applies the given layout to the entire CyNetworkView, but locks the given Nodes and Edges in place

Specified by:

applyLockedLayout in interface CyNetworkView

applyLayout

public void applyLayout(LayoutAlgorithm layout,
                        CyNode[] nodes,
                        CyEdge[] edges)

Applies the given layout to only the given Nodes and Edges

Specified by:

applyLayout in interface CyNetworkView

applyLockedLayout

public void applyLockedLayout(LayoutAlgorithm layout,
                              CyNodeView[] nodes,
                              CyEdgeView[] edges)

Applies the given layout to the entire CyNetworkView, but locks the given NodeViews and EdgeViews in place

Specified by:

applyLockedLayout in interface CyNetworkView

applyLayout

public void applyLayout(LayoutAlgorithm layout,
                        CyNodeView[] nodes,
                        CyEdgeView[] edges)

Applies the given layout to only the given NodeViews and EdgeViews

Specified by:

applyLayout in interface CyNetworkView

applyLockedLayout

public void applyLockedLayout(LayoutAlgorithm layout,
                              int[] nodes,
                              int[] edges)

Applies the given layout to the entire CyNetworkView, but locks the given Nodes and Edges in place

Specified by:

applyLockedLayout in interface CyNetworkView

applyLayout

public void applyLayout(LayoutAlgorithm layout,
                        int[] nodes,
                        int[] edges)

Applies the given layout to only the given Nodes and Edges

Specified by:

applyLayout in interface CyNetworkView

setSelected

public boolean setSelected(CyNode[] nodes)

Sets the Given nodes Selected

Specified by:

setSelected in interface CyNetworkView

setSelected

public boolean setSelected(giny.view.NodeView[] node_views)

Sets the Given nodes Selected

Specified by:

setSelected in interface CyNetworkView

setSelected

public boolean setSelected(CyEdge[] edges)

Sets the Given edges Selected

Specified by:

setSelected in interface CyNetworkView

setSelected

public boolean setSelected(giny.view.EdgeView[] edge_views)

Sets the Given edges Selected

Specified by:

setSelected in interface CyNetworkView

convertToViews

protected giny.view.NodeView[] convertToViews(CyNode[] nodes)

convertToViews

protected giny.view.EdgeView[] convertToViews(CyEdge[] edges)

convertToNodeViews

protected giny.view.NodeView[] convertToNodeViews(int[] nodes)

convertToEdgeViews

protected giny.view.EdgeView[] convertToEdgeViews(int[] edges)

getInverseViews

protected giny.view.NodeView[] getInverseViews(giny.view.NodeView[] given)

getInverseViews

protected giny.view.EdgeView[] getInverseViews(giny.view.EdgeView[] given)