Creating a node/edge dependent submenus within the context menu -- App development

[Corinna Vehlow]

Hi,

I'm currently working on an App for Cytopscape 3 that can be called over the context menu. So far, I have created a menu-option under Apps that shows up (lets name it "MyEdgeAction"), if the right-click was performed on an edge.
Therefore I used the sample app CreateNetworkViewContextMenu.
Instead of having one single menu option (Apps/MyEdgeAction), my app should have several submenu-options that depend on the clicked edge, similar to the ExternalLinks context-menu-option of Cytoscape (see attached screenshot). So I want to create I context-menu structure, such as:
Apps/MyEdgeAction/action1
Apps/MyEdgeAction/action2
Apps/MyEdgeAction/action3
Where the number and type of available actions depends on the edge the user clicked on.
These could be even split into further submenu, e.g.,
Apps/MyEdgeAction/action1/action1.1
Apps/MyEdgeAction/action1/action1.2

Does anyone know, how to set up a context menu like this?

Corinna

[Tim Hull]

When implementing CyEdgeViewContextMenuFactory, create a JMenu in the createMenuItem function instead of a JMenuItem. You can then add both JMenuItems and JMenus (to which you can add JMenuItems to create submenus) to this menu as desired. 

After you have finished constructing your menu as desired, you would create the CyMenuItem to be returned by passing the parent JMenu into CyMenuItem's constructor (JMenu is accepted as a child class of JMenuItem).

Hope this helps...

Tim

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[Corinna Vehlow]

Thanks for your response.

Can you tell me more about how to use the CyEdgeViewContextMenuFactory for this purpose?
Similar to the sample app CreateNetworkViewContextMenu, I have created a class that extends the abstract class AbstractEdgeViewTaskFactory. An instance of that class is than registered in the start method of CyActivator.
Would that be similar for the CyEdgeViewContextMenuFactory? Can you refer to or do you have some code snippets maybe?

Corinna

Am Dienstag, 13. August 2013 15:14:58 UTC-6 schrieb Tim Hull:

When implementing CyEdgeViewContextMenuFactory, create a JMenu in the createMenuItem function instead of a JMenuItem. You can then add both JMenuItems and JMenus (to which you can add JMenuItems to create submenus) to this menu as desired. 

After you have finished constructing your menu as desired, you would create the CyMenuItem to be returned by passing the parent JMenu into CyMenuItem's constructor (JMenu is accepted as a child class of JMenuItem).

Hope this helps...

Tim

On Tue, Aug 13, 2013 at 12:02 PM, Corinna Vehlow <corinna...@gmail.com> wrote:

Hi,

I'm currently working on an App for Cytopscape 3 that can be called over the context menu. So far, I have created a menu-option under Apps that shows up (lets name it "MyEdgeAction"), if the right-click was performed on an edge.
Therefore I used the sample app CreateNetworkViewContextMenu.
Instead of having one single menu option (Apps/MyEdgeAction), my app should have several submenu-options that depend on the clicked edge, similar to the ExternalLinks context-menu-option of Cytoscape (see attached screenshot). So I want to create I context-menu structure, such as:
Apps/MyEdgeAction/action1
Apps/MyEdgeAction/action2
Apps/MyEdgeAction/action3
Where the number and type of available actions depends on the edge the user clicked on.
These could be even split into further submenu, e.g.,
Apps/MyEdgeAction/action1/action1.1
Apps/MyEdgeAction/action1/action1.2

Does anyone know, how to set up a context menu like this?

Corinna

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[Tim Hull]

You can create edge context menus in two ways - using the CyEdgeViewContextMenuFactory or the AbstractEdgeViewTaskFactory. The former will create menus and menu items directly - the latter will generate a single menu item using the Task framework.

You can set individual EdgeViewTaskFactory objects to put themselves on a specific submenu by setting the preferredMenu property in their properties object as in the following code, which generates an "Edge View Task" menu item under the Apps-Samples submenu:

// Add right click menu item to the edge view

Properties myEdgeViewTaskFactoryProps = new Properties();

myEdgeViewTaskFactoryProps.setProperty("preferredAction","NEW");

myEdgeViewTaskFactoryProps.setProperty("preferredMenu","Apps.Samples");

myEdgeViewTaskFactoryProps.setProperty("title","Edge View Task");

registerService(bc,myEdgeViewTaskFactory,EdgeViewTaskFactory.class, myEdgeViewTaskFactoryProps);

However, each TaskFactory corresponds to a single menu item, and will always appear in the menu if registered (though it can be disabled when unavailable by implementing the isReady function). 

To generate a fully dynamic menu, you must instead implement the CyEdgeViewContextMenuFactory that I described in my previous e-mail. Sample project sample26 (under our samples directory) has an example of this...

Hope this helps...

Tim

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[Corinna Vehlow]

I looked at sample 26 and compiled it and installed it in Cytoscape. However, the two menu-options "sample CyNodeVCMF" and "sample CyEdgeVCMF" do not appear in the context menu.
Is the method createMenuItem() called internally and automatically by Cytoscape or do I need to trigger the right click event somehow and do it manually?

Sample 26:
public class CyActivator extends AbstractCyActivator {
    @Override
    public void start(BundleContext context) throws Exception {
        CyNodeViewContextMenuFactory cyNodeVCMF  = new CyNodeVCMFSample();
        CyEdgeViewContextMenuFactory cyEdgeVCMF = new CyEdgeVCNMFSample();
       
        Properties properties = new Properties();
        registerAllServices(context, cyNodeVCMF, properties);
        registerAllServices(context, cyEdgeVCMF, properties);       
    }
}

public class CyNodeVCMFSample implements CyNodeViewContextMenuFactory, ActionListener{
    @Override
    public CyMenuItem createMenuItem(CyNetworkView netView,
            View<CyNode> nodeView) {       
        JMenuItem jMenu = new JMenuItem("sample CyNodeVCMF");
        jMenu.addActionListener(this);
        CyMenuItem newMenu = new CyMenuItem(jMenu, 1);
        return newMenu;       
    }

    public void actionPerformed(ActionEvent e) {
        // Write your own function here.
        JOptionPane.showMessageDialog(null, "CyNodeViewContextMenuFactory worked.");       

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[Tim Hull]

There seems to be an issue with that sample - if you replace the dependency versions [3.0.0-alpha7,4.0) in the pom.xml with 3.0.0 (without brackets or parentheses), it should work fine. We will be releasing an updated version of the samples soon that will fix this and other issues...

Tim

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[Corinna Vehlow]

I changed and run mvn clean install again. The app seems to be loaded:

[ 167] [Active     ] [            ] [  190] Cytoscape Welcome Screen Impl (welcome-impl) (3.0.1)
[ 168] [Active     ] [            ] [  200] org.cytoscape.sample.sample26 (0.0.1.SNAPSHOT)
Cytoscape 3.0.1> start 168

But nevertheless, the menu-options do not appear anywhere.

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[IgorRodchenkov]

Did you check for what'sgoing on (if any exceptions are there) in your ~/CytoscapeConfiguration/3/framework-cytoscape.log right after installing the app?

IR.

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[Tim Hull]

It seems there are a few other things that need to be done to the pom.xml. First, replace the "bundle.namespace" line towards the beginning of the file with the following:

<bundle.namespace>org.cytoscape.sample.sample26.internal</bundle.namespace>

After that, replace the maven-bundle-plugin section with the following:

<plugin>

<groupId>org.apache.felix</groupId>

<artifactId>maven-bundle-plugin</artifactId>

<version>2.3.4</version>

<extensions>true</extensions>

<configuration>

<instructions>

<Bundle-SymbolicName>${bundle.symbolicName}</Bundle-SymbolicName>

<Bundle-Version>${project.version}</Bundle-Version>

<Export-Package>!${bundle.namespace}.*</Export-Package>

<Private-Package>${bundle.namespace}.*</Private-Package>

<Bundle-Activator>${bundle.namespace}.CyActivator</Bundle-Activator>

</instructions>

</configuration>

</plugin>

This will all be fixed in the next update to our samples...

Tim

[Corinna Vehlow]

Ok, thanks! With these changes in the pom.xml, the app works fine!

Corinna

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[Noga]

Hi, 

I'm using the same sample, but I wish to know which node was clicked on - the node the context menu was opened for ?

Can I get this information from the ActionEvent ?

Thanks

Noga 

 

[Tim Hull]

If you use the CyNodeViewContextMenuFactory, the createMenuItem method is called when the context menu is accessed. Here you have access to the node's view, from which you can get the actual CyNode using the getModel() method...

If you are doing something else, what exactly are you using to create the context menu?

Hope this helps...

Tim

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[נגה ברכה‎]

Yes this helps , thank you !

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