Examples with CyServiceRegistrar org.cytoscape.service.util.CyServiceRegistrar used on opensource projects

Example 51 with CyServiceRegistrar

use of org.cytoscape.service.util.CyServiceRegistrar in project cytoscape-impl by cytoscape.

the class LoadVizmapFileTaskFactoryTest method testObserver.

@Test
public void testObserver() throws Exception {
    VizmapReaderManager vizmapReaderMgr = mock(VizmapReaderManager.class);
    VizmapReader reader = mock(VizmapReader.class);
    when(vizmapReaderMgr.getReader(any(URI.class), any(String.class))).thenReturn(reader);
    VisualMappingManager vmMgr = mock(VisualMappingManager.class);
    SynchronousTaskManager<?> syncTaskManager = mock(SynchronousTaskManager.class);
    SyncTunableMutatorFactory mutatorFactory = new SyncTunableMutatorFactory(new SyncTunableHandlerFactory());
    TunableRecorderManager recorderManager = new TunableRecorderManager();
    TunableSetter tunableSetter = new TunableSetterImpl(mutatorFactory, recorderManager);
    CyServiceRegistrar serviceRegistrar = mock(CyServiceRegistrar.class);
    when(serviceRegistrar.getService(VizmapReaderManager.class)).thenReturn(vizmapReaderMgr);
    when(serviceRegistrar.getService(VisualMappingManager.class)).thenReturn(vmMgr);
    when(serviceRegistrar.getService(SynchronousTaskManager.class)).thenReturn(syncTaskManager);
    when(serviceRegistrar.getService(TunableSetter.class)).thenReturn(tunableSetter);
    LoadVizmapFileTaskFactory factory = new LoadVizmapFileTaskFactoryImpl(serviceRegistrar);
    File file = new File("");
    TaskObserver observer = mock(TaskObserver.class);
    TaskIterator iterator = factory.createTaskIterator(file, observer);
    TaskMonitor taskMonitor = mock(TaskMonitor.class);
    while (iterator.hasNext()) {
        Task t = iterator.next();
        t.run(taskMonitor);
        if (t instanceof ObservableTask)
            observer.taskFinished((ObservableTask) t);
    }
    verify(observer, times(1)).taskFinished(any(ObservableTask.class));
}

Example 52 with CyServiceRegistrar

use of org.cytoscape.service.util.CyServiceRegistrar in project cytoscape-impl by cytoscape.

the class CyActivator method start.

@Override
public void start(BundleContext bc) {
    final CyServiceRegistrar serviceRegistrar = getService(bc, CyServiceRegistrar.class);
    startSpacial(bc, serviceRegistrar);
    startCustomGraphicsMgr(bc, serviceRegistrar);
    startCharts(bc, serviceRegistrar);
    startGradients(bc, serviceRegistrar);
    startPresentationImpl(bc, serviceRegistrar);
}

Example 53 with CyServiceRegistrar

use of org.cytoscape.service.util.CyServiceRegistrar in project cytoscape-impl by cytoscape.

the class CyActivator method start.

@Override
public void start(BundleContext bc) {
    final CyServiceRegistrar serviceRegistrar = getService(bc, CyServiceRegistrar.class);
    InterpreterImpl interpreter = new InterpreterImpl();
    EquationParserImpl parser = new EquationParserImpl(serviceRegistrar);
    EquationCompilerImpl compiler = new EquationCompilerImpl(parser);
    registerService(bc, compiler, EquationCompiler.class, new Properties());
    registerService(bc, interpreter, Interpreter.class, new Properties());
    registerService(bc, parser, EquationParser.class, new Properties());
    // For dynamically add functions.
    registerServiceListener(bc, parser::registerFunctionService, parser::unregisterFunctionService, Function.class);
}

Example 54 with CyServiceRegistrar

use of org.cytoscape.service.util.CyServiceRegistrar in project cytoscape-impl by cytoscape.

the class CyActivator method start.

@Override
public void start(BundleContext bc) {
    final CyServiceRegistrar serviceRegistrar = getService(bc, CyServiceRegistrar.class);
    TransformerManagerImpl transformerManager = new TransformerManagerImpl();
    registerService(bc, transformerManager, TransformerManager.class, new Properties());
    registerServiceListener(bc, transformerManager::registerTransformerSource, transformerManager::unregisterTransformerSource, TransformerSource.class);
    registerServiceListener(bc, transformerManager::registerFilterFactory, transformerManager::unregisterFilterFactory, FilterFactory.class);
    registerServiceListener(bc, transformerManager::registerElementTransformerFactory, transformerManager::unregisterElementTransformerFactory, ElementTransformerFactory.class);
    registerServiceListener(bc, transformerManager::registerHolisticTransformerFactory, transformerManager::unregisterHolisticTransformerFactory, HolisticTransformerFactory.class);
    TransformerViewManager transformerViewManager = new TransformerViewManager(transformerManager);
    registerServiceListener(bc, transformerViewManager::registerTransformerViewFactory, transformerViewManager::unregisterTransformerViewFactory, TransformerViewFactory.class);
    registerService(bc, new CyNetworkSource(), TransformerSource.class, new Properties());
    // Filters
    registerService(bc, new DegreeFilterFactory(), FilterFactory.class, new Properties());
    registerService(bc, new ColumnFilterFactory(), FilterFactory.class, new Properties());
    registerService(bc, new TopologyFilterFactory(), FilterFactory.class, new Properties());
    registerService(bc, new CompositeFilterFactory<CyNetwork, CyIdentifiable>(CyNetwork.class, CyIdentifiable.class), FilterFactory.class, new Properties());
    // Transformers
    registerService(bc, new InteractionTransformerFactory(), ElementTransformerFactory.class, new Properties());
    registerService(bc, new AdjacencyTransformerFactory(), ElementTransformerFactory.class, new Properties());
    ModelMonitor modelMonitor = new ModelMonitor();
    registerAllServices(bc, modelMonitor, new Properties());
    ValidationManager validationManager = new ValidationManager();
    registerAllServices(bc, validationManager, new Properties());
    FilterPanelStyle style = new FlatStyle();
    registerService(bc, new DegreeFilterViewFactory(style, modelMonitor), TransformerViewFactory.class, new Properties());
    registerService(bc, new ColumnFilterViewFactory(style, modelMonitor, serviceRegistrar), TransformerViewFactory.class, new Properties());
    registerService(bc, new TopologyFilterViewFactory(style), TransformerViewFactory.class, TopologyFilterViewFactory.getServiceProperties());
    registerService(bc, new InteractionTransformerViewFactory(style), TransformerViewFactory.class, new Properties());
    registerService(bc, new AdjacencyTransformerViewFactory(style, serviceRegistrar), TransformerViewFactory.class, AdjacencyTransformerViewFactory.getServiceProperties());
    LazyWorkQueue queue = new LazyWorkQueue();
    FilterIO filterIo = new FilterIO(serviceRegistrar);
    FilterWorker filterWorker = new FilterWorker(queue, serviceRegistrar);
    FilterPanelController filterPanelController = new FilterPanelController(transformerManager, transformerViewManager, validationManager, filterWorker, modelMonitor, filterIo, style, serviceRegistrar);
    FilterPanel filterPanel = new FilterPanel(filterPanelController, filterWorker, serviceRegistrar);
    TransformerWorker transformerWorker = new TransformerWorker(queue, transformerManager, serviceRegistrar);
    TransformerPanelController transformerPanelController = new TransformerPanelController(transformerManager, transformerViewManager, validationManager, filterPanelController, transformerWorker, filterIo, style, serviceRegistrar);
    TransformerPanel transformerPanel = new TransformerPanel(transformerPanelController, transformerWorker, serviceRegistrar);
    CytoPanelComponent selectPanel = new FilterCytoPanelComponent(transformerViewManager, modelMonitor, filterPanel, transformerPanel);
    registerService(bc, selectPanel, CytoPanelComponent.class, new Properties());
    FilterSettingsManager settingsManager = new FilterSettingsManager(filterPanel, transformerPanel, filterIo);
    registerService(bc, settingsManager, SessionAboutToBeSavedListener.class, new Properties());
    registerService(bc, settingsManager, SessionAboutToBeLoadedListener.class, new Properties());
    registerService(bc, settingsManager, SessionLoadedListener.class, new Properties());
    // new TransformerPanelManager API
    {
        Properties props = new Properties();
        props.setProperty("service.type", "manager");
        props.setProperty("container.type", "filter");
        registerService(bc, filterPanel, TransformerContainer.class, props);
    }
    {
        Properties props = new Properties();
        props.setProperty("service.type", "manager");
        props.setProperty("container.type", "chain");
        registerService(bc, transformerPanel, TransformerContainer.class, props);
    }
    // commands
    {
        Properties props = new Properties();
        props.setProperty(COMMAND, "import");
        props.setProperty(COMMAND_NAMESPACE, "filter");
        props.setProperty(COMMAND_DESCRIPTION, "Import filter JSON from a file.");
        props.setProperty(COMMAND_LONG_DESCRIPTION, "Import filter JSON from a file.");
        registerService(bc, new ImportNamedTransformersTaskFactory(filterIo, filterPanel), TaskFactory.class, props);
    }
    {
        Properties props = new Properties();
        props.setProperty(COMMAND, "export");
        props.setProperty(COMMAND_NAMESPACE, "filter");
        props.setProperty(COMMAND_DESCRIPTION, "Export filter JSON to a file.");
        props.setProperty(COMMAND_LONG_DESCRIPTION, "Export filter JSON to a file.");
        registerService(bc, new ExportNamedTransformersTaskFactory(filterIo, filterPanelController), TaskFactory.class, props);
    }
}

Example 55 with CyServiceRegistrar

use of org.cytoscape.service.util.CyServiceRegistrar in project cytoscape-impl by cytoscape.

the class TestCyGroupFactory method getFactory.

public static CyGroupFactory getFactory() {
    final DummyCyEventHelper eventHelper = new DummyCyEventHelper();
    final VisualMappingManager vmMgr = mock(VisualMappingManager.class);
    final CyNetworkViewManager netViewMgr = mock(CyNetworkViewManager.class);
    final CyServiceRegistrar serviceRegistrar = mock(CyServiceRegistrar.class);
    when(serviceRegistrar.getService(CyEventHelper.class)).thenReturn(eventHelper);
    when(serviceRegistrar.getService(VisualMappingManager.class)).thenReturn(vmMgr);
    when(serviceRegistrar.getService(CyNetworkViewManager.class)).thenReturn(netViewMgr);
    final CyGroupManagerImpl mgr = new CyGroupManagerImpl(serviceRegistrar);
    final LockedVisualPropertiesManager lvpMgr = new LockedVisualPropertiesManager(serviceRegistrar);
    final CyGroupFactoryImpl groupFactory = new CyGroupFactoryImpl(mgr, lvpMgr);
    return groupFactory;
}