public Display getGraphDisplay(
GraphLayoutType glType, final ExperimentPanel expPanel, String highlightName) {
Display display = new Display();
int X = expPanel.getDetailWidth();
int Y = expPanel.getDetailHeight();
display.setSize(X, Y); // set display size
// display.setHighQuality(true);
// display.setPreferredSize(new Dimension(600,600));
display.addControlListener(new DragControl()); // drag items around
display.addControlListener(new PanControl()); // pan with background left-drag
display.addControlListener(new WheelZoomControl()); // zoom with vertical right-drag
display.addControlListener(
new ZoomToFitControl(Visualization.ALL_ITEMS, 50, 500, Control.MIDDLE_MOUSE_BUTTON));
display.addControlListener(new NeighborHighlightControl());
Visualization vis = new Visualization();
if (clusterGraph == null) {
clusterGraph = this.toGraph();
}
vis.add("graph", clusterGraph);
LabelRenderer r = new LabelRenderer("name");
r.setHorizontalAlignment(Constants.CENTER);
// r.setRoundedCorner(8, 8); // round the corners
DefaultRendererFactory rf = new DefaultRendererFactory(r);
rf.setDefaultEdgeRenderer(new EdgeRenderer(Constants.EDGE_TYPE_CURVE));
vis.setRendererFactory(rf);
int[] palette = new int[] {ColorLib.rgb(255, 180, 180), ColorLib.rgb(190, 190, 255)};
DataColorAction fill =
new DataColorAction(
"graph.nodes", "type", Constants.NOMINAL, VisualItem.FILLCOLOR, palette);
fill.add(VisualItem.FIXED, ColorLib.rgb(255, 100, 100));
fill.add(VisualItem.HIGHLIGHT, ColorLib.rgb(255, 200, 125));
int[] text_palette = new int[] {ColorLib.gray(0), ColorLib.gray(255)};
DataColorAction text =
new DataColorAction(
"graph.nodes",
"indeterminate",
Constants.NUMERICAL,
VisualItem.TEXTCOLOR,
text_palette);
// ColorAction text = new ColorAction("graph.nodes", VisualItem.TEXTCOLOR, ColorLib.gray(0));
ColorAction edges = new ColorAction("graph.edges", VisualItem.STROKECOLOR, ColorLib.gray(200));
ActionList color = new ActionList(Activity.INFINITY);
color.add(text);
color.add(fill);
color.add(edges);
color.add(new RepaintAction());
if (highlightName != null) {
String pred = "name='" + highlightName + "'";
Iterator iter = vis.items("graph.nodes", ExpressionParser.predicate(pred));
while (iter.hasNext()) {
NodeItem ni = (NodeItem) iter.next();
highlightedItem = ni;
ni.setFixed(true);
Iterator iterEdge = ni.edges();
while (iterEdge.hasNext()) {
EdgeItem eItem = (EdgeItem) iterEdge.next();
NodeItem nItem = eItem.getAdjacentItem(ni);
if (eItem.isVisible()) {
eItem.setHighlighted(true);
nItem.setHighlighted(true);
}
}
}
}
ActionList layout = new ActionList();
switch (glType) {
case BALLOON_TREE:
layout.add(new BalloonTreeLayout("graph"));
break;
case FORCE_DIRECTED:
layout = new ActionList(Activity.INFINITY);
layout.add(new ForceDirectedLayout("graph"));
break;
case NODE_LINK_TREE:
layout.add(new NodeLinkTreeLayout("graph"));
break;
case RADIAL_TREE:
layout.add(new RadialTreeLayout("graph"));
break;
}
// layout.add(fill);
layout.add(new RepaintAction());
vis.putAction("color", color);
vis.putAction("layout", layout);
display.setVisualization(vis);
vis.run("color");
vis.run("layout");
// Rectangle2D bounds = vis.getBounds(Visualization.ALL_ITEMS);
// GraphicsLib.expand(bounds, 50 + (int)(1/display.getScale()));
// DisplayLib.fitViewToBounds(display,bounds,1);
// vis.runAfter("layout",1000);
Control shutoffHighlight =
new HoverActionControl("color") {
// public void itemEntered(VisualItem item, MouseEvent evt) {
// }
public void itemExited(VisualItem item, MouseEvent evt) {
if (highlightedItem != null) {
highlightedItem.setFixed(false);
Iterator iterEdge = highlightedItem.edges();
while (iterEdge.hasNext()) {
EdgeItem eItem = (EdgeItem) iterEdge.next();
NodeItem nItem = eItem.getAdjacentItem(highlightedItem);
if (eItem.isVisible()) {
eItem.setHighlighted(false);
nItem.setHighlighted(false);
}
}
highlightedItem = null;
}
}
};
display.addControlListener(shutoffHighlight);
Control selectItem =
new FocusControl() {
public void itemClicked(VisualItem item, MouseEvent evt) {
if (item.isInGroup("graph.nodes")) {
if (item.getString("type").equals("peptide")) {
Peptide pep = minPeptides.get(item.getString("name"));
expPanel.showPeptide(pep, true);
}
if (item.getString("type").equals("protein")) {
Protein pro = minProteins.get(item.getString("name"));
expPanel.showProtein(pro, true);
}
String pred = "name='" + item.getString("name") + "'";
Iterator iter =
item.getVisualization().items("graph.nodes", ExpressionParser.predicate(pred));
while (iter.hasNext()) {
NodeItem ni = (NodeItem) iter.next();
highlightedItem = ni;
ni.setFixed(true);
Iterator iterEdge = ni.edges();
while (iterEdge.hasNext()) {
EdgeItem eItem = (EdgeItem) iterEdge.next();
NodeItem nItem = eItem.getAdjacentItem(ni);
if (eItem.isVisible()) {
eItem.setHighlighted(true);
nItem.setHighlighted(true);
}
}
}
}
}
};
display.addControlListener(selectItem);
final JPopupMenu menu = new JPopupMenu();
// Create and add a menu item
// JMenuItem printItem = new JMenuItem("Print This");
// printItem.addActionListener(new java.awt.event.ActionListener() {
// public void actionPerformed(java.awt.event.ActionEvent evt) {
// PrintUtilities.printComponent(display);
// }
// });
// menu.add(printItem);
// Set the component to show the popup menu
display.addMouseListener(
new MouseAdapter() {
public void mousePressed(MouseEvent evt) {
if (evt.isPopupTrigger()) {
menu.show(evt.getComponent(), evt.getX(), evt.getY());
}
}
public void mouseReleased(MouseEvent evt) {
if (evt.isPopupTrigger()) {
menu.show(evt.getComponent(), evt.getX(), evt.getY());
}
}
});
display.pan(X / 2.0, Y / 2.0);
return display;
}
public static JComponent demo(Graph g, String label) {
// create a new, empty visualization for our data
final Visualization vis = new Visualization();
VisualGraph vg = vis.addGraph(graph, g);
vis.setValue(edges, null, VisualItem.INTERACTIVE, Boolean.FALSE);
int[] palette =
new int[] {
ColorLib.rgb(77, 175, 74),
ColorLib.rgb(55, 126, 184),
ColorLib.rgb(228, 26, 28),
ColorLib.rgb(152, 78, 163),
ColorLib.rgb(255, 127, 0)
};
int[] shape_palette =
new int[] {Constants.SHAPE_ELLIPSE, Constants.SHAPE_RECTANGLE, Constants.SHAPE_TRIANGLE_UP};
TupleSet focusGroup = vis.getGroup(Visualization.FOCUS_ITEMS);
focusGroup.addTupleSetListener(
new TupleSetListener() {
public void tupleSetChanged(TupleSet ts, Tuple[] add, Tuple[] rem) {
for (int i = 0; i < rem.length; ++i) ((VisualItem) rem[i]).setFixed(false);
for (int i = 0; i < add.length; ++i) {
((VisualItem) add[i]).setFixed(false);
((VisualItem) add[i]).setFixed(true);
}
vis.run("draw");
}
});
// set up the renderers
/* ShapeRenderer s = new ShapeRenderer();
s.rectangle(0, 0, 30, 30);
vis.setRendererFactory(new DefaultRendererFactory(s));*/
MyRenderer tr = new MyRenderer(label);
// MyRenderer tr = new MyRenderer(label);
DefaultRendererFactory d = new DefaultRendererFactory(tr);
EdgeRenderer MyEdgeRenderer = new EdgeRenderer();
d.add(new InGroupPredicate(edges), MyEdgeRenderer);
vis.setRendererFactory(d);
// -- set up the actions ----------------------------------------------
int maxhops = 1024, hops = 1024;
final GraphDistanceFilter filter = new GraphDistanceFilter(graph, hops);
ActionList draw = new ActionList();
draw.add(filter);
// draw.add(new ColorAction(nodes, VisualItem.FILLCOLOR, ColorLib.rgb(180,180,255)));
draw.add(new ColorAction(nodes, VisualItem.STROKECOLOR, 0));
draw.add(new ColorAction(nodes, VisualItem.TEXTCOLOR, ColorLib.rgb(0, 0, 0)));
draw.add(new ColorAction(edges, VisualItem.FILLCOLOR, ColorLib.gray(100)));
draw.add(new ColorAction(edges, VisualItem.STROKECOLOR, ColorLib.gray(170)));
draw.add(new DataShapeAction(nodes, "type", shape_palette));
DataColorAction fill =
new DataColorAction(
"graph.nodes", "type", Constants.NOMINAL, VisualItem.FILLCOLOR, palette);
// use black for node text
ColorAction text = new ColorAction("graph.nodes", VisualItem.TEXTCOLOR, ColorLib.gray(0));
// use light grey for edges
ColorAction edges = new ColorAction("graph.edges", VisualItem.STROKECOLOR, ColorLib.gray(200));
// create an action list containing all color assignments
ActionList color = new ActionList();
color.add(fill);
color.add(text);
color.add(edges);
// ColorAction fill = new ColorAction(nodes,
// VisualItem.FILLCOLOR, ColorLib.rgb(200,200,255));
fill.add("_fixed", ColorLib.rgb(255, 100, 100));
fill.add("_highlight", ColorLib.rgb(255, 200, 125));
// Instead have to use GridLayout here - how do i create
ForceDirectedLayout fdl = new ForceDirectedLayout(graph);
// GridLayout fdl = new GridLayout(graph);
ForceSimulator fsim = fdl.getForceSimulator();
fsim.getForces()[0].setParameter(0, -5f);
ActionList animate = new ActionList(Activity.INFINITY);
// ActionList animate = new ActionList(vis);
animate.add(fdl);
animate.add(fill);
animate.add(new RepaintAction());
// finally, we register our ActionList with the Visualization.
// we can later execute our Actions by invoking a method on our
// Visualization, using the name we've chosen below.
vis.putAction("draw", draw);
vis.putAction("layout", animate);
vis.runAfter("draw", "layout");
vis.putAction("color", color);
// vis.putAction("layout", layout);
// --------------------------------------------------------------------
// STEP 4: set up a display to show the visualization
Display display = new Display(vis);
display.setSize(2000, 2000);
display.setForeground(Color.GRAY);
display.setBackground(Color.WHITE);
// main display controls
display.addControlListener(new FocusControl(1));
display.addControlListener(new DragControl());
display.addControlListener(new PanControl());
display.addControlListener(new ZoomControl());
display.addControlListener(new WheelZoomControl());
display.addControlListener(new ZoomToFitControl());
display.addControlListener(new NeighborHighlightControl());
display.setForeground(Color.GRAY);
display.setBackground(Color.WHITE);
// --------------------------------------------------------------------
// STEP 5: launching the visualization
// create a panel for editing force values
final JForcePanel fpanel = new JForcePanel(fsim);
final JValueSlider slider = new JValueSlider("Distance", 0, maxhops, hops);
slider.addChangeListener(
new ChangeListener() {
public void stateChanged(ChangeEvent e) {
filter.setDistance(slider.getValue().intValue());
vis.run("draw");
}
});
slider.setBackground(Color.WHITE);
slider.setPreferredSize(new Dimension(300, 30));
slider.setMaximumSize(new Dimension(300, 30));
Box cf = new Box(BoxLayout.Y_AXIS);
cf.add(slider);
cf.setBorder(BorderFactory.createTitledBorder("Connectivity Filter"));
fpanel.add(cf);
fpanel.add(Box.createVerticalGlue());
// create a new JSplitPane to present the interface
JSplitPane split = new JSplitPane();
split.setLeftComponent(display);
split.setRightComponent(fpanel);
split.setOneTouchExpandable(true);
split.setContinuousLayout(false);
split.setDividerLocation(530);
split.setDividerLocation(800);
// position and fix the default focus node
NodeItem focus = (NodeItem) vg.getNode(0);
PrefuseLib.setX(focus, null, 400);
PrefuseLib.setY(focus, null, 250);
focusGroup.setTuple(focus);
// now we run our action list and return
return split;
}
