Class AbstractCyApp

  • Direct Known Subclasses:

    public abstract class AbstractCyApp
    extends Object
    (As of Cytoscape 3.7) Support for simple apps will be removed in a future version of Cytoscape, please provide an OSGi bundle app instead.
    The primary app interface for Cytoscape that all apps must extend. App developers will have access to all core Cytoscape 3.X services, but are not required to know about or use Maven or OSGi. This interface does not provide access to Swing or GUI related services, for that use AbstractCySwingApp found in the package. There are limitations on which packages may be included in the app jar based on those already loaded in the classpath. To load alternative versions of the same library used by other apps or Cytoscape itself, it will be necessary to write your app using OSGi.

    Module: app-api

    To use this in your app, include the following dependency in your POM:


    Cytoscape Backwards Compatibility (Abstract Class): This class is abstract and meant to be extended by users. This means that we may add methods for minor version updates. Methods will only be removed for major version updates.
    • Field Detail

      • adapter

        protected CyAppAdapter adapter
        Reference to access Cytoscape functionality -- various managers and factories that are normally available as OSGi services.
    • Constructor Detail

      • AbstractCyApp

        public AbstractCyApp​(CyAppAdapter adapter)
        The constructor that all apps must call using "super(adapter);" where the "adapter" is a CyAppAdapter reference provided as an argument to the constructor. Cytoscape's app loader will execute the constructor and provide the proper CyAppAdapter reference.
         public class MyApp extends AbstractCyApp {
            public MyApp(CyAppAdapter adapter) {
               // app code here
        adapter - a CyAppAdapter reference provided as an argument to the constructor.