Examples with CyNetwork org.cytoscape.model.CyNetwork used on opensource projects

Example 61 with CyNetwork

use of org.cytoscape.model.CyNetwork in project cytoscape-impl by cytoscape.

the class CySessionManagerImpl method disposeCurrentSession.

@Override
public void disposeCurrentSession() {
    logger.debug("Disposing current session...");
    // Destroy network views
    final CyNetworkViewManager nvMgr = serviceRegistrar.getService(CyNetworkViewManager.class);
    final Set<CyNetworkView> netViews = nvMgr.getNetworkViewSet();
    for (final CyNetworkView nv : netViews) nvMgr.destroyNetworkView(nv);
    nvMgr.reset();
    // Destroy networks
    final CyNetworkManager netMgr = serviceRegistrar.getService(CyNetworkManager.class);
    final Set<CyNetwork> networks = netMgr.getNetworkSet();
    for (final CyNetwork n : networks) netMgr.destroyNetwork(n);
    netMgr.reset();
    // Destroy styles
    logger.debug("Removing current visual styles...");
    final VisualMappingManager vmMgr = serviceRegistrar.getService(VisualMappingManager.class);
    final VisualStyle defaultStyle = vmMgr.getDefaultVisualStyle();
    final List<VisualStyle> allStyles = new ArrayList<>(vmMgr.getAllVisualStyles());
    for (final VisualStyle vs : allStyles) {
        if (!vs.equals(defaultStyle))
            vmMgr.removeVisualStyle(vs);
    }
    // Destroy tables
    final CyTableManager tblMgr = serviceRegistrar.getService(CyTableManager.class);
    tblMgr.reset();
    // Reset groups
    serviceRegistrar.getService(CyGroupManager.class).reset();
    // Unregister session properties
    final Set<CyProperty<?>> cyPropsClone = getAllProperties();
    for (CyProperty<?> cyProps : cyPropsClone) {
        if (cyProps.getSavePolicy().equals(CyProperty.SavePolicy.SESSION_FILE)) {
            serviceRegistrar.unregisterAllServices(cyProps);
            sessionProperties.remove(cyProps.getName());
        }
    }
    // Clear undo stack
    serviceRegistrar.getService(UndoSupport.class).reset();
    // Reset current table and rendering engine
    final CyApplicationManager appMgr = serviceRegistrar.getService(CyApplicationManager.class);
    appMgr.reset();
    currentFileName = null;
    disposed = true;
}

Example 62 with CyNetwork

use of org.cytoscape.model.CyNetwork in project cytoscape-impl by cytoscape.

the class CreateNetworkViewsAction method updateEnableState.

@Override
public void updateEnableState() {
    final List<CyNetwork> networks = serviceRegistrar.getService(CyApplicationManager.class).getSelectedNetworks();
    final List<CyNetwork> networksWithoutViews = new ArrayList<>();
    final CyNetworkViewManager netViewManager = serviceRegistrar.getService(CyNetworkViewManager.class);
    // TODO Remove when multiple views per network are fully supported
    for (CyNetwork n : networks) {
        if (!netViewManager.viewExists(n))
            networksWithoutViews.add(n);
    }
    int count = networksWithoutViews.size();
    if (count > 0)
        setName("Create " + count + " View" + (count == 1 ? "" : "s"));
    else
        setName("Create Views");
    setEnabled(count > 0);
}

Example 63 with CyNetwork

use of org.cytoscape.model.CyNetwork in project cytoscape-impl by cytoscape.

the class ExportNetworkAction method updateEnableState.

@Override
public void updateEnableState() {
    List<CyNetwork> networks = serviceRegistrar.getService(CyApplicationManager.class).getSelectedNetworks();
    CyNetwork currentNet = serviceRegistrar.getService(CyApplicationManager.class).getCurrentNetwork();
    setEnabled(networks.size() == 1 && networks.get(0).equals(currentNet));
}

Example 64 with CyNetwork

use of org.cytoscape.model.CyNetwork in project cytoscape-impl by cytoscape.

the class LayoutMenuPopulator method checkEnabled.

private boolean checkEnabled() {
    CyApplicationManager appMgr = serviceRegistrar.getService(CyApplicationManager.class);
    CyNetwork network = appMgr.getCurrentNetwork();
    if (network == null)
        return false;
    CyNetworkView view = appMgr.getCurrentNetworkView();
    if (view == null)
        return false;
    else
        return true;
}

Example 65 with CyNetwork

use of org.cytoscape.model.CyNetwork in project cytoscape-impl by cytoscape.

the class EnhancedSearchPanel method doSearching.

// Do searching based on the query string from user on text-field
private void doSearching() {
    final String queryStr = tfSearchText.getText().trim();
    // Ignore if the search term is empty
    if (queryStr == null || queryStr.length() == 0)
        return;
    final CyApplicationManager appManager = serviceRegistrar.getService(CyApplicationManager.class);
    final CyNetwork currentNetwork = appManager.getCurrentNetwork();
    if (currentNetwork != null) {
        final SearchTaskFactory factory = new SearchTaskFactory(searchMgr, queryStr, serviceRegistrar);
        final DialogTaskManager taskMgr = serviceRegistrar.getService(DialogTaskManager.class);
        taskMgr.execute(factory.createTaskIterator(currentNetwork));
    } else {
        logger.error("Could not find network for search");
    }
}