Stopping WebSphere Application Server will shut down Appeon Server.
To stop WebSphere Application Server, change to the $WebSphere/AppServer/bin/ folder, for example, /opt/IBM/WebSphere/AppServer/bin/ or /opt/IBM/WebSphere/AppServerCommunityEdition/bin/, and run the shutdown.sh file.
./shutdown.sh server1
If you have any problems in using WebSphere Application Server, refer to the WebSphere Application Server documents at http://www7b.software.ibm.com/wsdd/zones/was/.