Examples with View org.cytoscape.view.model.View used on opensource projects

Example 1 with View

use of org.cytoscape.view.model.View in project EnrichmentMapApp by BaderLab.

the class EMStyleBuilder method setEdgeLineType.

private void setEdgeLineType(VisualStyle vs, EMStyleOptions options) {
    String col = CyEdge.INTERACTION;
    DiscreteMapping<String, LineType> dm = (DiscreteMapping<String, LineType>) dmFactory.createVisualMappingFunction(col, String.class, EDGE_LINE_TYPE);
    // Silence events fired by this mapping to prevent unnecessary style and view updates
    eventHelper.silenceEventSource(dm);
    try {
        LineType sigLineType = LineTypeVisualProperty.DOT;
        if (EDGE_LINE_TYPE.getRange().isDiscrete()) {
            DiscreteRange<LineType> range = (DiscreteRange<LineType>) EDGE_LINE_TYPE.getRange();
            Optional<LineType> first = range.values().stream().filter(v -> "MARQUEE_EQUAL".equalsIgnoreCase(v.getSerializableString())).findFirst();
            if (first.isPresent())
                sigLineType = first.get();
        }
        dm.putMapValue(Columns.EDGE_DATASET_VALUE_COMPOUND, LineTypeVisualProperty.SOLID);
        dm.putMapValue(Columns.EDGE_INTERACTION_VALUE_SIG, sigLineType);
    } finally {
        eventHelper.unsilenceEventSource(dm);
    }
    vs.addVisualMappingFunction(dm);
}

Example 2 with View

use of org.cytoscape.view.model.View in project cytoscape-impl by cytoscape.

the class SIFInterpreterTask method run.

@Override
public void run(TaskMonitor tm) {
    if (sifString == null)
        throw new NullPointerException("SIF input string is null");
    String[] terms = sifString.split("\\s");
    if (terms != null) {
        if (terms.length > 0) {
            String name1 = terms[0].trim();
            if (!name1.equals(null)) {
                CyNode node1 = findNode(terms[0]);
                if (node1 == null) {
                    node1 = network.addNode();
                    network.getRow(node1).set("name", terms[0]);
                // nv1 = view.getNodeView(node1);
                // double[] nextLocn = new double[2];
                // nextLocn[0] = p.getX();
                // nextLocn[1] = p.getY();
                // view.xformComponentToNodeCoords(nextLocn);
                // nv1.setOffset(nextLocn[0], nextLocn[1]);
                } else {
                // nv1 = view.getNodeView(node1);
                }
                if (terms.length == 3) {
                    // simple case of 'A interaction B'
                    CyNode node2 = findNode(terms[2]);
                    if (node2 == null) {
                        node2 = network.addNode();
                        network.getRow(node2).set("name", terms[2]);
                    // nv2 = view.getNodeView(node2);
                    // nv2.setOffset(nv1.getXPosition() + spacing, nv1.getYPosition());
                    }
                    CyEdge edge = network.addEdge(node1, node2, true);
                    network.getRow(edge).set("name", terms[1]);
                } else if (terms.length > 3) {
                    // process multiple targets and one source
                    List<View<CyNode>> nodeViews = new ArrayList<View<CyNode>>();
                    String interactionType = terms[1];
                    for (int i = 2; i < terms.length; i++) {
                        CyNode node2 = findNode(terms[i]);
                        if (node2 == null) {
                            node2 = network.addNode();
                            network.getRow(node2).set("name", terms[i]);
                        // nv2 = view.getNodeView(node2);
                        // nv2.setOffset(nv1.getXPosition() + spacing, nv1
                        // .getYPosition());
                        }
                        CyEdge edge = network.addEdge(node1, node2, true);
                        network.getRow(edge).set("name", terms[1]);
                    // doCircleLayout(nodeViews, nv1);
                    }
                }
            }
            // Apply visual style
            final CyEventHelper eventHelper = serviceRegistrar.getService(CyEventHelper.class);
            // To make sure the edge view is created before applying the style
            eventHelper.flushPayloadEvents();
            final VisualMappingManager vmMgr = serviceRegistrar.getService(VisualMappingManager.class);
            VisualStyle vs = vmMgr.getVisualStyle(view);
            vs.apply(view);
            view.updateView();
        }
    }
}

Example 3 with View

use of org.cytoscape.view.model.View in project cytoscape-impl by cytoscape.

the class NetworkViewMediator method updateView.

private void updateView(final CyNetworkView view, final VisualStyle style) {
    if (view == null)
        return;
    if (getNetworkViewMainPanel().isGridVisible() || view.equals(getNetworkViewMainPanel().getCurrentNetworkView())) {
        Timer timer = null;
        synchronized (lock) {
            timer = viewUpdateTimers.get(view);
        }
        if (timer == null) {
            timer = new Timer(0, evt -> {
                VisualStyle vs = style != null ? style : serviceRegistrar.getService(VisualMappingManager.class).getVisualStyle(view);
                vs.apply(view);
                view.updateView();
            });
            timer.setRepeats(false);
            timer.setCoalesce(true);
            synchronized (lock) {
                viewUpdateTimers.put(view, timer);
            }
        } else {
            timer.stop();
        }
        timer.setInitialDelay(120);
        timer.start();
    } else {
        viewUpdateRequired.add(view);
    }
}

Example 4 with View

use of org.cytoscape.view.model.View in project cytoscape-impl by cytoscape.

the class SelectFirstNeighborsNodeViewTaskTest method testRun.

@Test
public void testRun() throws Exception {
    // more setup
    List<CyNode> nl = new ArrayList<CyNode>();
    nl.add(e4);
    when(net.getNeighborList(e3, CyEdge.Type.ANY)).thenReturn(nl);
    View<CyNode> nv = (View<CyNode>) mock(View.class);
    when(nv.getModel()).thenReturn(e3);
    CyNetworkView netView = mock(CyNetworkView.class);
    when(netView.getModel()).thenReturn(net);
    // run the task
    Task t = new SelectFirstNeighborsNodeViewTask(nv, netView, CyEdge.Type.ANY, eventHelper);
    t.run(tm);
    // check that the expected rows were set
    verify(r4, times(1)).set("selected", true);
}

Example 5 with View

use of org.cytoscape.view.model.View in project cytoscape-impl by cytoscape.

the class AbstractPropertyTask method getPropertyValue.

public Object getPropertyValue(CyNetwork network, CyIdentifiable target, VisualProperty vp) {
    CyNetworkView networkView = getViewForNetwork(network);
    Class<? extends CyIdentifiable> vpTargetType = vp.getTargetDataType();
    if (target instanceof CyNetwork) {
        if (vpTargetType != CyNetwork.class)
            throw new RuntimeException("Property '" + vp.getDisplayName() + "' not available for networks");
        return networkView.getVisualProperty(vp);
    } else if (target instanceof CyNode) {
        if (vpTargetType != CyNode.class)
            throw new RuntimeException("Property '" + vp.getDisplayName() + "' not available for nodes");
        View<CyNode> nodeView = networkView.getNodeView((CyNode) target);
        return nodeView.getVisualProperty(vp);
    } else if (target instanceof CyEdge) {
        if (vpTargetType != CyEdge.class)
            throw new RuntimeException("Property '" + vp.getDisplayName() + "' not available for edges");
        View<CyEdge> edgeView = networkView.getEdgeView((CyEdge) target);
        return edgeView.getVisualProperty(vp);
    }
    return null;
}