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Getting current network
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Omar Wagih  
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 More options Sep 6 2012, 2:29 am
From: Omar Wagih <omarwa...@gmail.com>
Date: Wed, 5 Sep 2012 23:29:42 -0700 (PDT)
Local: Thurs, Sep 6 2012 2:29 am
Subject: Getting current network
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How can you get the current network being looked at?
Online says use this through the CyAppAdapter, but this does not seem to be
available in the most recent release. Is there something I'm missing?

Cheers


 
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Scooter Morris  
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 More options Sep 6 2012, 3:28 am
From: Scooter Morris <scoo...@cgl.ucsf.edu>
Date: Thu, 06 Sep 2012 00:28:41 -0700
Local: Thurs, Sep 6 2012 3:28 am
Subject: Re: [Cytoscape-discuss] Getting current network
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On 09/05/2012 11:29 PM, Omar Wagih wrote:

Hi Omar,
     The current network is maintained by the CyApplicationManager. So,
from your CyAppAdapter:

     CyNetwork currentNetwork =
appAdapter.getCyApplicationManager().getCurrentNetwork();

-- scooter


 
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Omar Wagih  
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 More options Sep 7 2012, 12:36 am
From: Omar Wagih <omarwa...@gmail.com>
Date: Thu, 6 Sep 2012 21:36:50 -0700 (PDT)
Local: Fri, Sep 7 2012 12:36 am
Subject: Re: [Cytoscape-discuss] Getting current network
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CyAppAdapter does not exist in the release I have...

Did a grep on "app" in the karaf terminal:
Cytoscape 3.0.0-M5> list |  grep app
[  87] [Active     ] [            ] [  104] Molecular interaction cluster
(OSGi wrapped version w/dependencies) (1.6)
[  97] [Active     ] [            ] [  110] Cytoscape Swing Application API
(swing-application-api) (3.0.0.beta2)
[  99] [Active     ] [            ] [  110] Cytoscape App API (app-api)
(3.0.0.beta2)
[ 100] [Active     ] [            ] [  110] Cytoscape Swing App API
(swing-app-api) (3.0.0.beta2)
[ 109] [Active     ] [            ] [  110] Cytoscape Application API
(application-api) (3.0.0.beta2)
[ 128] [Active     ] [            ] [  135] Cytoscape Application Impl
(application-impl) (3.0.0.alpha9)
[ 135] [Active     ] [            ] [  160] Cytoscape Swing Application
Impl (swing-application-impl) (3.0.0.alpha9)
[ 162] [Active     ] [            ] [  175] Cytoscape App Impl (app-impl)
(3.0.0.alpha9)

The version I have (beta3) ..
I have tired several dependencies in the list like

<dependency>
<groupId>org.cytoscape</groupId>
<artifactId>application-api</artifactId>
<version>${cytoscape.api.version}</version>
</dependency>

but the package org.cytoscape.app still isnt there.

I also tried to search maven repositories for CyAppAdaptor... and nothing
comes up

Omar


 
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Scooter Morris  
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 More options Sep 7 2012, 12:29 pm
From: Scooter Morris <scoo...@cgl.ucsf.edu>
Date: Fri, 07 Sep 2012 09:29:30 -0700
Local: Fri, Sep 7 2012 12:29 pm
Subject: Re: [Cytoscape-discuss] Getting current network
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Those are all bundles.  CyAppAdapter is provided by app-api and
CySwingAppAdapter (which extends CyAppAdapter with some Swing
GUI-specific methods) is provided by swing-app-api.  So all of the
bundles are starting as appropriate. So, in your pom.xml, you need to
depend on org.cytoscape.app:

<dependency>
     <groupId>org.cytoscape</groupId>
     <artifactId>app-api</artifactId>
     <version>${cytoscape.api.version}</version>
</dependency>

-- scooter

On 09/06/2012 09:36 PM, Omar Wagih wrote:


 
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