Author: sfederow
Date: 2010-10-25 19:25:20 -0700 (Mon, 25 Oct 2010)
New Revision: 22427
Removed:
csplugins/trunk/soc/sfederow/CyAnimator/src/CyFrame.java
Log:
Deleted: csplugins/trunk/soc/sfederow/CyAnimator/src/CyFrame.java
===================================================================
--- csplugins/trunk/soc/sfederow/CyAnimator/src/CyFrame.java 2010-10-26
02:25:03 UTC (rev 22426)
+++ csplugins/trunk/soc/sfederow/CyAnimator/src/CyFrame.java 2010-10-26
02:25:20 UTC (rev 22427)
@@ -1,712 +0,0 @@
-/*
- * File: CyFrame.java
- * Google Summer of Code
- * Written by Steve Federowicz with help from Scooter Morris
- *
- * The CyFrame class is essentially a wrapper on a CyNetworkView. It works by
having a populate() method which essentially extracts the
- * necessary view data from the current CyNetworkView and stores it in the
CyFrame. Each CyFrame also contains a display() method which
- * updates the current network view based upon the visual data stored in that
particular CyFrame. It also can hold an image of the network
- * and contains a facility for writing this image to a file.
- *
- */
-
-
-package CyAnimator;
-
-
-import cytoscape.*;
-
-import cytoscape.layout.*;
-
-import cytoscape.visual.*;
-
-import ding.view.EdgeContextMenuListener;
-
-import ding.view.NodeContextMenuListener;
-
-import giny.view.*;
-
-import java.util.*;
-
-import giny.model.Node;
-import giny.view.NodeView;
-import giny.model.Edge;
-import giny.view.EdgeView;
-
-import java.awt.geom.Point2D;
-import java.awt.Graphics2D;
-import java.awt.Color;
-import java.awt.Image;
-import java.awt.Stroke;
-import java.awt.image.*;
-import java.awt.Paint;
-import java.io.IOException;
-import java.io.FileOutputStream;
-import java.util.ArrayList;
-import java.util.HashMap;
-import java.util.Iterator;
-import java.util.List;
-import java.util.Map;
-
-import cytoscape.Cytoscape;
-import cytoscape.CyNetwork;
-import cytoscape.ding.DingNetworkView;
-import cytoscape.view.CyNetworkView;
-import cytoscape.view.InternalFrameComponent;
-import cytoscape.visual.VisualStyle;
-
-import cytoscape.util.export.BitmapExporter;
-import cytoscape.util.export.Exporter;
-
-import ding.view.DGraphView;
-
-public class CyFrame {
-
- private String frameid = "";
- private HashMap<String, double[]> nodePosMap;
- private HashMap<String, Color> nodeColMap;
- private HashMap<String, Integer> nodeOpacityMap;
- private HashMap<String, Float> nodeBorderWidthMap;
- private HashMap<String, double[]> nodeSizeMap;
-
- private HashMap<String, Integer> edgeOpacityMap;
- private HashMap<String, Color> edgeColMap;
- private HashMap<String, Float> edgeWidthMap;
-
- private Paint backgroundPaint = null;
- private double zoom = 0;
-
- private double xalign;
- private double yalign;
-
- private CyNetworkView networkView = null;
- private CyNetwork currentNetwork = null;
- private BufferedImage networkImage = null;
- private Map<Node, NodeView> nodeMap = null;
- private Map<Edge, EdgeView> edgeMap = null;
- private VisualStyle vizStyle = null;
- private List<Node> nodeList = null;
- private List<Edge> edgeList = null;
- private List<NodeView> nodeViewList = null;
- private List<EdgeView> edgeViewList = null;
- private int intercount = 0;
- private Point2D centerPoint = null;
- private DGraphView dview = null;
-
- /**
- * Creates this CyFrame by initializing and populating all of the
fields.
- *
- * @param currentNetwork
- */
- public CyFrame(CyNetwork currentNetwork){
- nodePosMap = new HashMap<String, double[]>();
- nodeColMap = new HashMap<String, Color>();
- nodeSizeMap = new HashMap<String, double[]>();
- nodeBorderWidthMap = new HashMap<String, Float>();
- edgeMap = new HashMap();
- nodeMap = new HashMap();
- nodeOpacityMap = new HashMap<String, Integer>();
- edgeOpacityMap = new HashMap<String, Integer>();
- edgeColMap = new HashMap<String, Color>();
- edgeWidthMap = new HashMap<String, Float>();
- this.currentNetwork = currentNetwork;
- networkView = Cytoscape.getCurrentNetworkView();
- this.dview = (DGraphView)networkView;
- this.centerPoint = dview.getCenter();
-
- nodeViewList = new ArrayList();
- edgeViewList = new ArrayList();
-
- // Initialize our edge view maps
- Iterator<EdgeView> eviter = networkView.getEdgeViewsIterator();
- while(eviter.hasNext()) {
- EdgeView ev = eviter.next();
- edgeMap.put(ev.getEdge(), ev);
- edgeViewList.add(ev);
- }
-
- // Initialize our node view maps
- Iterator<NodeView> nviter = networkView.getNodeViewsIterator();
- while(nviter.hasNext()) {
- NodeView nv = nviter.next();
- nodeMap.put(nv.getNode(), nv);
- nodeViewList.add(nv);
- }
-
- // Remember the visual style
- vizStyle = Cytoscape.getVisualMappingManager().getVisualStyle();
-
- // Get our initial nodeList
- nodeList = currentNetwork.nodesList();
-
- // Get our initial edgeList
- edgeList = currentNetwork.edgesList();
-
-
- }
-
- /*
- * Captures all of the current visual settings for nodes and edges from
a
- * CyNetworkView and stores them in this frame.
- */
- public void populate() {
- backgroundPaint = networkView.getBackgroundPaint();
- zoom = networkView.getZoom();
- xalign = networkView.getComponent().getAlignmentX();
- yalign = networkView.getComponent().getAlignmentY();
-
- dview = (DGraphView)networkView;
-
- for(Node node: nodeList){
-
- NodeView nodeView = networkView.getNodeView(node);
- if(nodeView == null){ continue; }
-
- //stores the x and y position of the node
- double[] xy = new double[2];
- xy[0] = nodeView.getXPosition();
- xy[1] = nodeView.getYPosition();
- nodePosMap.put(node.getIdentifier(), xy);
-
- double height = nodeView.getHeight();
- double width = nodeView.getWidth();
- double[] size = {height, width};
- nodeSizeMap.put(node.getIdentifier(), size);
-
- float borderWidth = nodeView.getBorderWidth();
- nodeBorderWidthMap.put(node.getIdentifier(),
borderWidth);
-
- //grab color and opacity
- Color nodeColor = (Color)nodeView.getUnselectedPaint();
- Integer trans = nodeColor.getAlpha();
- //store in respective hashmap
- nodeColMap.put(node.getIdentifier(),
(Color)nodeView.getUnselectedPaint());
- nodeOpacityMap.put(node.getIdentifier(), trans);
-
- centerPoint = dview.getCenter();
-
- }
-
- for(Edge edge: edgeList){
-
- EdgeView edgeView = networkView.getEdgeView(edge);
- if(edgeView == null){ continue; }
-
- //grab color and opacity
- Color p = (Color)edgeView.getUnselectedPaint();
- Integer trans = p.getAlpha();
- //store in respective hashmap
- edgeColMap.put(edge.getIdentifier(), p);
- edgeOpacityMap.put(edge.getIdentifier(), trans);
- edgeWidthMap.put(edge.getIdentifier(),
edgeView.getStrokeWidth());
- }
- }
-
- /**
- * Captures and stores a thumbnail image from the current CyNetworkView
for
- * this frame.
- */
- public void captureImage() {
-
- double scale = .35;
- double wscale = .25;
-
- CyNetworkView view = Cytoscape.getCurrentNetworkView();
-
-
- InternalFrameComponent ifc =
Cytoscape.getDesktop().getNetworkViewManager().getInternalFrameComponent(view);
- int width = (int) (ifc.getWidth() * wscale);
- int height = (int) (ifc.getHeight() * scale);
-
- BufferedImage image = new BufferedImage(width, height,
BufferedImage.TYPE_INT_RGB);
-
- Graphics2D g = (Graphics2D) image.getGraphics();
- g.scale(scale, scale);
-
- //ifc.paint(g);
- ifc.print(g);
- g.dispose();
-
- networkImage = image;
-
- }
-
- /*
- * Cycles through the list of nodes and edges and updates the node and
edge views
- * based upon the visual data stored as part of the CyFrame.
- */
- public void display() {
-
- Cytoscape.getVisualMappingManager().setVisualStyle(vizStyle);
-
- // We want to use the current view in case we're interpolating
- // across views
- CyNetworkView currentView = Cytoscape.getCurrentNetworkView();
-
-
- // First see if we have any views we need to remove
- List<EdgeView> removeEdgeViews = new ArrayList();
- Iterator<EdgeView> eviter = currentView.getEdgeViewsIterator();
- while(eviter.hasNext()) {
- EdgeView ev = eviter.next();
- if (!edgeMap.containsKey(ev.getEdge()))
- removeEdgeViews.add(ev);
- }
-
- for (EdgeView ev: removeEdgeViews)
- currentView.removeEdgeView(ev);
-
- // Initialize our edge view maps
- List<NodeView> removeNodeViews = new ArrayList();
- Iterator<NodeView> nviter = currentView.getNodeViewsIterator();
- while(nviter.hasNext()) {
- NodeView nv = nviter.next();
- if (!nodeMap.containsKey(nv.getNode()))
- removeNodeViews.add(nv);
- }
-
- for (NodeView nv: removeNodeViews)
- currentView.removeNodeView(nv);
-
-
- for(Node node: nodeList)
- {
-
- NodeView nodeView = currentView.getNodeView(node);
- if (nodeView == null) {
- addNodeView(currentView, nodeMap.get(node),
node);
- nodeView = currentView.getNodeView(node);
-
Cytoscape.getVisualMappingManager().vizmapNode(nodeView, currentView);
- }
-
- double[] xy = nodePosMap.get(node.getIdentifier());
- Color p = nodeColMap.get(node.getIdentifier());
- Integer trans =
nodeOpacityMap.get(node.getIdentifier());
- // System.out.println("DISPLAY "+node+": "+xy[0]+"
"+xy[1]+", trans = "+trans);
- //if(xy == null || nodeView == null){ continue; }
-
- nodeView.setXPosition(xy[0]);
- nodeView.setYPosition(xy[1]);
-
- double[] size = nodeSizeMap.get(node.getIdentifier());
- nodeView.setHeight(size[0]);
- nodeView.setWidth(size[1]);
-
-
nodeView.setBorderWidth(nodeBorderWidthMap.get(node.getIdentifier()));
-
- nodeView.setUnselectedPaint(new Color(p.getRed(),
p.getGreen(), p.getBlue(), trans));
-
- }
- for(Edge edge: getEdgeList())
- {
- EdgeView edgeView = currentView.getEdgeView(edge);
- if (edgeView == null) {
- addEdgeView(currentView, edgeMap.get(edge),
edge);
- edgeView = currentView.getEdgeView(edge);
- }
- Color p = edgeColMap.get(edge.getIdentifier());
- if (p == null || edgeView == null) continue;
- Integer trans =
edgeOpacityMap.get(edge.getIdentifier());
- edgeView.setUnselectedPaint(new Color(p.getRed(),
p.getGreen(), p.getBlue(), trans));
- //Added as of 7/1/2010, must have been some kind of
internal change in the API
- Stroke oldStroke = edgeView.getStroke();
- Stroke newStroke =
LineStyle.extractLineStyle(oldStroke).getStroke(edgeWidthMap.get(edge.getIdentifier()));
- edgeView.setStroke(newStroke);
- System.out.println(edge.getIdentifier()+":
"+edgeWidthMap.get(edge.getIdentifier()));
-
edgeView.setStrokeWidth(edgeWidthMap.get(edge.getIdentifier()));
- }
- currentView.setBackgroundPaint(backgroundPaint);
- currentView.setZoom(zoom);
- //networkView.getComponent().
- dview = (DGraphView)currentView;
-
- //InternalFrameComponent ifc =
Cytoscape.getDesktop().getNetworkViewManager().getInternalFrameComponent(networkView);
-
- dview.setCenter(centerPoint.getX(), centerPoint.getY());
-
- //dview.setBounds(x, y, Math.round(ifc.getWidth()),
Math.round(ifc.getHeight()));
- //ifc.setBounds(arg0, arg1, arg2, arg3)
- currentView.updateView();
- }
-
- /**
- * Return the frame ID for this frame
- *
- * @return the frame ID
- *
- */
- public String getID() {
- return frameid;
- }
-
- public void setID(String ID) {
- frameid = ID;
- }
-
- /**
- * Return the CyNetwork for this frame
- *
- * @return the CyNetwork
- */
- public CyNetwork getCurrentNetwork() {
- return currentNetwork;
- }
-
- /**
- * Return the number of frames to be interpolated between this frame
and the next.
- *
- * @return the frame number
- */
- public int getInterCount() {
- return intercount;
- }
-
- /**
- * Set the number of frames to be interpolated between this frame and
the next.
- *
- * @param interCount the number of frames to interpret
- */
- public void setInterCount(int intercount) {
- this.intercount = intercount;
- }
-
- /**
- * Return the zoom value for this frame.
- *
- * @return zoom
- */
- public double getZoom() {
- return zoom;
- }
-
- /**
- * Set the zoom value for this frame.
- *
- * @param zoom set the zoom value
- */
- public void setZoom(double zoom) {
- this.zoom = zoom;
- }
-
- /**
- * Return the background color value for this frame.
- *
- * @return the background color
- */
- public Paint getBackgroundPaint() {
- return backgroundPaint;
- }
-
- /**
- * Set the background color value for this frame.
- *
- * @param bg set the background color
- */
- public void setBackgroundPaint(Paint bg) {
- backgroundPaint = bg;
- }
-
- /**
- * Get the node position for a node in this frame
- *
- * @param nodeID the ID of the node whose position to retrieve
- * @return the node position as a double array with two values
- */
- public double[] getNodePosition(String nodeID) {
- return nodePosMap.get(nodeID);
- }
-
- /**
- * Set the node position for a node in this frame
- *
- * @param nodeID the ID of the node whose position to retrieve
- * @param pos a 2 element double array with the x,y values for this node
- */
- public void setNodePosition(String nodeID, double[] pos) {
- nodePosMap.put(nodeID, pos);
- }
-
- /**
- * Get the node color for a node in this frame
- *
- * @param nodeID the ID of the node whose color to retrieve
- * @return the color
- */
- public Color getNodeColor(String nodeID) {
- return nodeColMap.get(nodeID);
- }
-
- /**
- * Set the node color for a node in this frame
- *
- * @param nodeID the ID of the node whose color to retrieve
- * @param color the color for this node
- */
- public void setNodeColor(String nodeID, Color color) {
- nodeColMap.put(nodeID, color);
- }
-
- /**
- * Get the edge color for an edge in this frame
- *
- * @param edgeID the ID of the edge whose color to retrieve
- * @return the color
- */
- public Color getEdgeColor(String edgeID) {
- return edgeColMap.get(edgeID);
- }
-
- /**
- * Set the edge color for a edge in this frame
- *
- * @param edge the ID of the edge whose color to retrieve
- * @param color the color for this edge
- */
- public void setEdgeColor(String edgeID, Color color) {
- edgeColMap.put(edgeID, color);
- }
-
- /**
- * Get the edge opacity for an edge in this frame
- *
- * @param edgeID the ID of the edge whose opacity to retrieve
- * @return the opacity
- */
- public Integer getEdgeOpacity(String edgeID) {
- Integer opacity = edgeOpacityMap.get(edgeID);
- return opacity;
- }
-
- /**
- * Set the edge opacity for an edge in this frame
- *
- * @param edge the ID of the edge whose opacity to retrieve
- * @param opacity the opacity for this edge
- */
- public void setEdgeOpacity(String edgeID, Integer opacity) {
- edgeOpacityMap.put(edgeID, opacity);
- }
-
- /**
- * Get the node opacity for a node in this frame
- *
- * @param nodeID the ID of the node whose opacity to retrieve
- * @return the opacity
- */
- public Integer getNodeOpacity(String nodeID) {
- Integer opacity = nodeOpacityMap.get(nodeID);
- return opacity;
- }
-
- /**
- * Set the node opacity for an node in this frame
- *
- * @param node the ID of the node whose opacity to retrieve
- * @param opacity the opacity for this node
- */
- public void setNodeOpacity(String nodeID, Integer opacity) {
- nodeOpacityMap.put(nodeID, opacity);
- }
-
- /**
- * Gets node size of an individual node
- *
- * @param nodeID
- * @return node size
- */
- public double[] getNodeSize(String nodeID) {
- double[] size = nodeSizeMap.get(nodeID);
- return size;
- }
-
- /**
- * Sets node size of an individual node
- *
- * @param nodeID
- * @param size
- */
- public void setNodeSize(String nodeID, double[] size){
- nodeSizeMap.put(nodeID, size);
- }
-
- /**
- *
- * @param nodeID
- * @return width of node border
- */
- public float getNodeBorderWidth(String nodeID){
- float width = nodeBorderWidthMap.get(nodeID);
- return width;
- }
-
- /**
- *
- * @param nodeID
- * @param width
- */
- public void setNodeBorderWidth(String nodeID, float width){
- nodeBorderWidthMap.put(nodeID, width);
- }
-
- /**
- *
- * @param edgeID
- * @return the edge width
- */
- public float getEdgeWidth(String edgeID){
- return edgeWidthMap.get(edgeID);
- }
-
- /**
- *
- * @param nodeID
- * @param width
- */
- public void setEdgeWidth(String edgeID, float width){
- edgeWidthMap.put(edgeID, width);
- }
-
- /**
- * Get the list of nodes in this frame
- *
- * @return the list of nodes
- */
- public List<Node> getNodeList() {
- return nodeList;
- }
-
- /**
- * Get the list of edges in this frame
- *
- * @return the list of edges
- */
- public List<Edge> getEdgeList() {
- return edgeList;
- }
-
- /**
- * Set the list of nodes in this frame
- *
- * @param nodeList the list of nodes
- */
- public void setNodeList(List<Node>nodeList) {
- this.nodeList = nodeList;
- }
-
- /**
- * Set the list of edges in this frame
- *
- * @param edgeList the list of edges
- */
- public void setEdgeList(List<Edge>edgeList) {
- this.edgeList = edgeList;
- }
-
- /**
- * Get the list of node views in this frame
- *
- * @return the list of node views
- */
- public List<NodeView> getNodeViewList() {
- return nodeViewList;
- }
-
- /**
- * Get the list of edge views in this frame
- *
- * @return the list of edge views
- */
- public List<EdgeView> getEdgeViewList() {
- return edgeViewList;
- }
-
- /**
- * Set the list of node views in this frame
- *
- * @param nodeViewList the list of node views
- */
- public void setNodeViewList(List<NodeView>nodeViewList) {
- this.nodeViewList = nodeViewList;
- }
-
- /**
- * Set the list of edge views in this frame
- *
- * @param edgeViewList the list of edges
- */
- public void setEdgeViewList(List<EdgeView>edgeViewList) {
- this.edgeViewList = edgeViewList;
- }
-
- /**
- * Get the Image for this frame
- *
- * @return the image for this frame
- */
- public BufferedImage getFrameImage() {
- return this.networkImage;
- }
-
- /**
- * Export a graphic image for this frame
- *
- * @param fileName the file to write the image to
- */
- public void writeImage(String fileName) {
- display();
- CyNetworkView curView = Cytoscape.getCurrentNetworkView();
- // Get the component to export
- InternalFrameComponent ifc =
-
Cytoscape.getDesktop().getNetworkViewManager().getInternalFrameComponent(curView);
-
-
- // Handle the exportTextAsShape property
- DGraphView theViewToPrint = (DingNetworkView) curView;
- boolean exportTextAsShape =
- new
Boolean(CytoscapeInit.getProperties().getProperty("exportTextAsShape")).booleanValue();
-
- theViewToPrint.setPrintingTextAsShape(exportTextAsShape);
- Exporter pngExporter = new BitmapExporter("png", 5.0f);
- Exporter jpegExporter = new BitmapExporter("jpeg", 4.0f);
-
- try {
- FileOutputStream outputFile = new
FileOutputStream(fileName);
- //pngExporter.export(curView, outputFile);
- jpegExporter.export(curView, outputFile);
- outputFile.close();
- } catch (IOException e) {
- //
- }
-
- System.out.println("writing...");
- }
-
- /**
- * Get the center point for the frame
- *
- * @return the center for this frame
- */
- public Point2D getCenterPoint() {
- return this.centerPoint;
- }
-
- /**
- * Set the center point of the frame
- *
- * @param center point for a frame
- */
- public void setCenterPoint(Point2D pnt) {
- this.centerPoint = pnt;
- }
-
- // At some point, need to pull the information from nv
- // and map it to the new nv.
- private void addNodeView(CyNetworkView view, NodeView nv, Node node) {
- view.addNodeView(node.getRootGraphIndex());
- }
-
- private void addEdgeView(CyNetworkView view, EdgeView ev, Edge edge) {
- view.addEdgeView(edge.getRootGraphIndex());
- }
-
-}
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