Examples with CySubNetwork org.cytoscape.model.subnetwork.CySubNetwork used on opensource projects

Example 6 with CySubNetwork

use of org.cytoscape.model.subnetwork.CySubNetwork in project cytoscape-impl by cytoscape.

the class NullNetworkViewPanel method update.

private void update() {
    if (networkView != null) {
        getInfoIconLabel().setText(ICON_EXTERNAL_LINK_SQUARE);
        getInfoIconLabel().setToolTipText("This view is detached");
    } else if (network != null) {
        getInfoIconLabel().setText(ICON_SHARE_ALT);
        getInfoIconLabel().setToolTipText(network instanceof CySubNetwork ? "This network has no views" : "A network collection cannot have views");
    } else {
        getInfoIconLabel().setText(null);
        getInfoIconLabel().setToolTipText(null);
    }
    getInfoIconLabel().setVisible(networkView != null || network != null);
    getInfoLabel().setVisible(network == null && networkView == null);
    getCreateViewButton().setVisible(networkView == null && network instanceof CySubNetwork);
    getReattachViewButton().setVisible(networkView != null);
    sep2.setVisible(networkView != null);
    if (networkView != null)
        getTitleLabel().setText(ViewUtil.getTitle(networkView));
    else if (network != null)
        getTitleLabel().setText(ViewUtil.getName(network));
    else
        getTitleLabel().setText(null);
    final Dimension d = new Dimension(1, network != null && networkView == null ? getCreateViewButton().getPreferredSize().height : 0);
    getGapLabel().setPreferredSize(d);
    getGapLabel().setMinimumSize(d);
    getGapLabel().setMaximumSize(d);
    getGapLabel().setSize(d);
    getToolBar().updateUI();
}

Example 7 with CySubNetwork

use of org.cytoscape.model.subnetwork.CySubNetwork in project cytoscape-impl by cytoscape.

the class NetworkViewMainPanel method init.

private void init() {
    setBorder(BorderFactory.createMatteBorder(0, 1, 1, 1, UIManager.getColor("Separator.foreground")));
    setLayout(new BorderLayout());
    add(getContentPane(), BorderLayout.CENTER);
    // Add Listeners
    nullViewPanel.getCreateViewButton().addActionListener(evt -> {
        if (nullViewPanel.getNetwork() instanceof CySubNetwork) {
            final CreateNetworkViewTaskFactory factory = serviceRegistrar.getService(CreateNetworkViewTaskFactory.class);
            final DialogTaskManager taskManager = serviceRegistrar.getService(DialogTaskManager.class);
            taskManager.execute(factory.createTaskIterator(Collections.singleton(nullViewPanel.getNetwork())));
        }
    });
    nullViewPanel.getInfoIconLabel().addMouseListener(new MouseAdapter() {

        @Override
        public void mouseClicked(MouseEvent e) {
            if (!e.isPopupTrigger() && nullViewPanel.getNetworkView() != null) {
                final NetworkViewFrame frame = getNetworkViewFrame(nullViewPanel.getNetworkView());
                if (frame != null)
                    showViewFrame(frame);
            }
        }
    });
    nullViewPanel.getReattachViewButton().addActionListener(evt -> {
        if (nullViewPanel.getNetworkView() != null)
            reattachNetworkView(nullViewPanel.getNetworkView());
    });
    networkViewGrid.addPropertyChangeListener("selectedNetworkViews", evt -> {
        // Just fire the same event
        firePropertyChange("selectedNetworkViews", evt.getOldValue(), evt.getNewValue());
    });
    networkViewGrid.addPropertyChangeListener("currentNetworkView", evt -> {
        final CyNetworkView curView = (CyNetworkView) evt.getNewValue();
        for (NetworkViewContainer vc : getAllNetworkViewContainers()) vc.setCurrent(vc.getNetworkView().equals(curView));
    });
    Toolkit.getDefaultToolkit().addAWTEventListener(mousePressedAWTEventListener, MouseEvent.MOUSE_EVENT_MASK);
    // Update
    updateGrid();
}

Example 8 with CySubNetwork

use of org.cytoscape.model.subnetwork.CySubNetwork in project cytoscape-impl by cytoscape.

the class CyNetworkAutoDeleteTest method testUndoDeletedEdge.

@Test
public void testUndoDeletedEdge() {
    CyNetwork network1 = TestCyNetworkFactory.getInstance();
    CyRootNetwork rootNetwork = ((CySubNetwork) network1).getRootNetwork();
    CyNode n1 = network1.addNode();
    CyNode n2 = network1.addNode();
    CyNode n3 = network1.addNode();
    CyEdge e1 = network1.addEdge(n1, n2, false);
    CyEdge e2 = network1.addEdge(n2, n3, false);
    CyNetwork network2 = rootNetwork.addSubNetwork(Arrays.asList(n1, n2, n3), Arrays.asList(e1, e2));
    network1.removeNodes(Collections.singleton(n1));
    network2.removeNodes(Collections.singleton(n1));
    assertFalse(rootNetwork.containsEdge(e1));
    assertFalse(rootNetwork.containsNode(n1));
    // restoring the edge should automatically restore its source and target nodes as well
    ((CySubNetwork) network1).addEdge(e1);
    assertTrue(rootNetwork.containsNode(n1));
    assertTrue(network1.containsNode(n1));
    assertFalse(network2.containsNode(n1));
    assertTrue(rootNetwork.containsEdge(e1));
    assertTrue(network1.containsEdge(e1));
    assertFalse(network2.containsEdge(e1));
}

Example 9 with CySubNetwork

use of org.cytoscape.model.subnetwork.CySubNetwork in project cytoscape-impl by cytoscape.

the class CyNetworkAutoDeleteTest method testRestoreEdge.

@Test
public void testRestoreEdge() {
    CyNetwork network1 = TestCyNetworkFactory.getInstance();
    CyRootNetwork rootNetwork = ((CySubNetwork) network1).getRootNetwork();
    CyNode n1 = network1.addNode();
    CyNode n2 = network1.addNode();
    CyNode n3 = network1.addNode();
    CyEdge e1 = network1.addEdge(n1, n2, false);
    CyEdge e2 = network1.addEdge(n2, n3, false);
    CyNetwork network2 = rootNetwork.addSubNetwork(Arrays.asList(n1, n2, n3), Arrays.asList(e1, e2));
    network1.removeEdges(Arrays.asList(e1));
    network2.removeEdges(Arrays.asList(e1));
    assertFalse(rootNetwork.containsEdge(e1));
    rootNetwork.restoreEdge(e1);
    assertTrue(rootNetwork.containsEdge(e1));
}

Example 10 with CySubNetwork

use of org.cytoscape.model.subnetwork.CySubNetwork in project cytoscape-impl by cytoscape.

the class CyNetworkAutoDeleteTest method testSubnetworkWorkaround.

@Test
public void testSubnetworkWorkaround() {
    CyNetwork network1 = TestCyNetworkFactory.getInstance();
    CyRootNetwork rootNetwork = ((CySubNetwork) network1).getRootNetwork();
    CyNode n1 = network1.addNode();
    CyNode n2 = network1.addNode();
    CyNode n3 = network1.addNode();
    CyNode n4 = network1.addNode();
    CyEdge e1 = network1.addEdge(n1, n2, false);
    CyEdge e2 = network1.addEdge(n2, n3, false);
    CyNetwork network2 = rootNetwork.addSubNetwork(Arrays.asList(n1, n2, n3, n4), Arrays.asList(e1, e2));
    // will also cause n2 to be saved because its attached to e1
    rootNetwork.addSubNetwork(Arrays.asList(n1), Arrays.asList(e1));
    network1.removeEdges(Arrays.asList(e1));
    network2.removeEdges(Arrays.asList(e1));
    // additional subnetwork keeps e1 alive
    assertTrue(rootNetwork.containsEdge(e1));
    assertTrue(rootNetwork.containsNode(n1));
    assertTrue(rootNetwork.containsNode(n2));
    assertTrue(rootNetwork.containsNode(n3));
    assertTrue(rootNetwork.containsNode(n4));
    assertTrue(rootNetwork.containsEdge(e2));
    rootNetwork.removeSubNetwork((CySubNetwork) network1);
    rootNetwork.removeSubNetwork((CySubNetwork) network2);
    // should flush nodes/edges not in the additional subnetwork
    assertTrue(rootNetwork.containsEdge(e1));
    assertTrue(rootNetwork.containsNode(n1));
    assertTrue(rootNetwork.containsNode(n2));
    assertFalse(rootNetwork.containsNode(n3));
    assertFalse(rootNetwork.containsNode(n4));
    assertFalse(rootNetwork.containsEdge(e2));
}