Examples with UndoSupport org.cytoscape.work.undo.UndoSupport used on opensource projects

Example 1 with UndoSupport

use of org.cytoscape.work.undo.UndoSupport in project cytoscape-impl by cytoscape.

the class CyActivator method start.

@Override
public void start(BundleContext bc) {
    CyServiceRegistrar serviceRegistrar = getService(bc, CyServiceRegistrar.class);
    CyEventHelper cyEventHelperRef = getService(bc, CyEventHelper.class);
    CyNetworkNaming cyNetworkNamingServiceRef = getService(bc, CyNetworkNaming.class);
    UndoSupport undoSupportServiceRef = getService(bc, UndoSupport.class);
    CyNetworkViewFactory cyNetworkViewFactoryServiceRef = getService(bc, CyNetworkViewFactory.class);
    CyNetworkFactory cyNetworkFactoryServiceRef = getService(bc, CyNetworkFactory.class);
    CyRootNetworkManager cyRootNetworkFactoryServiceRef = getService(bc, CyRootNetworkManager.class);
    VisualMappingManager visualMappingManagerServiceRef = getService(bc, VisualMappingManager.class);
    CyNetworkViewWriterManager networkViewWriterManagerServiceRef = getService(bc, CyNetworkViewWriterManager.class);
    CyNetworkManager cyNetworkManagerServiceRef = getService(bc, CyNetworkManager.class);
    CyNetworkViewManager cyNetworkViewManagerServiceRef = getService(bc, CyNetworkViewManager.class);
    CyApplicationManager cyApplicationManagerServiceRef = getService(bc, CyApplicationManager.class);
    CySessionManager cySessionManagerServiceRef = getService(bc, CySessionManager.class);
    CyTableFactory cyTableFactoryServiceRef = getService(bc, CyTableFactory.class);
    CyTableManager cyTableManagerServiceRef = getService(bc, CyTableManager.class);
    CyLayoutAlgorithmManager cyLayoutsServiceRef = getService(bc, CyLayoutAlgorithmManager.class);
    CyTableWriterManager cyTableWriterManagerRef = getService(bc, CyTableWriterManager.class);
    SynchronousTaskManager<?> synchronousTaskManagerServiceRef = getService(bc, SynchronousTaskManager.class);
    TunableSetter tunableSetterServiceRef = getService(bc, TunableSetter.class);
    CyRootNetworkManager rootNetworkManagerServiceRef = getService(bc, CyRootNetworkManager.class);
    CyNetworkTableManager cyNetworkTableManagerServiceRef = getService(bc, CyNetworkTableManager.class);
    RenderingEngineManager renderingEngineManagerServiceRef = getService(bc, RenderingEngineManager.class);
    CyNetworkViewFactory nullNetworkViewFactory = getService(bc, CyNetworkViewFactory.class, "(id=NullCyNetworkViewFactory)");
    CyGroupManager cyGroupManager = getService(bc, CyGroupManager.class);
    CyGroupFactory cyGroupFactory = getService(bc, CyGroupFactory.class);
    {
        DynamicTaskFactoryProvisionerImpl factory = new DynamicTaskFactoryProvisionerImpl(serviceRegistrar);
        registerAllServices(bc, factory);
    }
    createPreferencesTaskFactories(bc, serviceRegistrar);
    createFilterTaskFactories(bc, serviceRegistrar);
    createTableTaskFactories(bc, serviceRegistrar, undoSupportServiceRef, cyNetworkManagerServiceRef, cyApplicationManagerServiceRef, cyTableFactoryServiceRef, cyTableManagerServiceRef, cyTableWriterManagerRef, tunableSetterServiceRef, rootNetworkManagerServiceRef, cyNetworkTableManagerServiceRef);
    createNetworkTaskFactories(bc, serviceRegistrar, cyEventHelperRef, cyNetworkNamingServiceRef, undoSupportServiceRef, cyNetworkViewFactoryServiceRef, cyNetworkFactoryServiceRef, cyRootNetworkFactoryServiceRef, visualMappingManagerServiceRef, cyNetworkManagerServiceRef, cyNetworkViewManagerServiceRef, cyApplicationManagerServiceRef, synchronousTaskManagerServiceRef, rootNetworkManagerServiceRef, cyNetworkTableManagerServiceRef, renderingEngineManagerServiceRef, nullNetworkViewFactory, cyGroupManager, cyGroupFactory, networkViewWriterManagerServiceRef, tunableSetterServiceRef);
    createViewTaskFactories(bc, cyEventHelperRef, undoSupportServiceRef, visualMappingManagerServiceRef, networkViewWriterManagerServiceRef, cyNetworkViewManagerServiceRef, cyApplicationManagerServiceRef, cyLayoutsServiceRef, tunableSetterServiceRef, renderingEngineManagerServiceRef, cyNetworkManagerServiceRef, cySessionManagerServiceRef, serviceRegistrar);
    createVizmapTaskFactories(bc, serviceRegistrar);
    createSessionTaskFactories(bc, serviceRegistrar);
    createGroupTaskFactories(bc, undoSupportServiceRef, cyApplicationManagerServiceRef, cyGroupManager, cyGroupFactory, serviceRegistrar);
    createNodeEdgeTaskFactories(bc, serviceRegistrar, cyEventHelperRef, undoSupportServiceRef, cyNetworkViewManagerServiceRef, tunableSetterServiceRef, cyApplicationManagerServiceRef, cyTableManagerServiceRef, renderingEngineManagerServiceRef, visualMappingManagerServiceRef);
    createLayoutTaskFactories(bc, serviceRegistrar);
    createHelpTaskFactories(bc, serviceRegistrar);
}

Example 2 with UndoSupport

use of org.cytoscape.work.undo.UndoSupport in project cytoscape-impl by cytoscape.

the class UnHideTask method run.

@Override
public void run(TaskMonitor e) {
    e.setProgress(0.0);
    final CyNetwork network = view.getModel();
    final List<CyIdentifiable> elements = new ArrayList<>();
    nodes = null;
    edges = null;
    e.setProgress(0.1);
    if (unhideNodes) {
        nodes = network.getNodeList();
        elements.addAll(nodes);
    }
    if (unhideEdges) {
        edges = network.getEdgeList();
        elements.addAll(edges);
    }
    e.setProgress(0.2);
    final UndoSupport undoSupport = serviceRegistrar.getService(UndoSupport.class);
    final CyEventHelper eventHelper = serviceRegistrar.getService(CyEventHelper.class);
    final VisualMappingManager vmMgr = serviceRegistrar.getService(VisualMappingManager.class);
    undoSupport.postEdit(new HideEdit(description, view, elements, true, eventHelper, vmMgr));
    e.setProgress(0.3);
    if (nodes != null)
        HideUtils.setVisibleNodes(nodes, true, view);
    e.setProgress(0.5);
    if (edges != null)
        HideUtils.setVisibleEdges(edges, true, view);
    e.setProgress(0.7);
    vmMgr.getVisualStyle(view).apply(view);
    view.updateView();
    e.setProgress(1.0);
}

Example 3 with UndoSupport

use of org.cytoscape.work.undo.UndoSupport in project cytoscape-impl by cytoscape.

the class RenameNodeTask method run.

@Override
public void run(TaskMonitor tm) throws Exception {
    if (node == null)
        return;
    CyRow nodeRow = net.getRow(node);
    String oldName = nodeRow.get(CyNetwork.NAME, String.class);
    nodeRow.set(CyNetwork.NAME, newName);
    nodeRow.set(CyRootNetwork.SHARED_NAME, newName);
    final UndoSupport undoSupport = serviceRegistrar.getService(UndoSupport.class);
    undoSupport.postEdit(new RenameNodeEdit(net, node, oldName, newName));
}

Example 4 with UndoSupport

use of org.cytoscape.work.undo.UndoSupport in project cytoscape-impl by cytoscape.

the class ClearErrorsEdit method run.

@Override
public void run(final TaskMonitor tm) throws Exception {
    final CyTable table = column.getTable();
    final EquationCompiler compiler = serviceRegistrar.getService(EquationCompiler.class);
    final List<ErrorEquation> errorEquations = new ArrayList<>();
    for (CyRow row : table.getAllRows()) {
        if (cancelled)
            return;
        final Object raw = row.getRaw(column.getName());
        if (raw instanceof Equation) {
            final Equation eq = (Equation) raw;
            final boolean success = compiler.compile(eq.toString(), TableBrowserUtil.getAttNameToTypeMap(table, null));
            // TODO: success is incorrectly set to yes on broken equations [=ABS(String)]
            if (!success || row.get(column.getName(), column.getType()) == null)
                errorEquations.add(new ErrorEquation(row, column.getName(), eq));
        }
    }
    for (ErrorEquation err : errorEquations) {
        if (cancelled) {
            restoreDeletedEquations();
            return;
        }
        deletedEquations.add(err);
        err.clear();
    }
    if (!deletedEquations.isEmpty()) {
        final UndoSupport undoSupport = serviceRegistrar.getService(UndoSupport.class);
        undoSupport.postEdit(new ClearErrorsEdit(column.getName(), deletedEquations));
    }
}

Example 5 with UndoSupport

use of org.cytoscape.work.undo.UndoSupport in project cytoscape-impl by cytoscape.

the class DeselectAllEdgesTaskTest method testRun.

@Test
public void testRun() throws Exception {
    UndoSupport undoSupport = mock(UndoSupport.class);
    Set<CyRow> selectedEdges = new HashSet<CyRow>();
    selectedEdges.add(r1);
    selectedEdges.add(r2);
    when(edgeTable.getMatchingRows(CyNetwork.SELECTED, true)).thenReturn(selectedEdges);
    // run the task
    Task t = new DeselectAllEdgesTask(undoSupport, net, networkViewManager, eventHelper);
    t.run(tm);
    // check that the expected rows were set
    verify(r1, times(1)).set("selected", false);
    verify(r2, times(1)).set("selected", false);
}