There is an entry in the knowledge base on the webMethods advantage site on how to bounce the IS:
You can stop and start any service with the
net stop “webMethods Integration Server”
net start “webMethods Integration Server”
commands. The problem is that the IS does not stop when you stop the IS service. So you have to use the directions from the knowledge base to stop the IS. Then Stop the service. Starting the service will start the IS.
I created this java program to STOP the IS. The IS will stop and not start until the service is restarted.
public class stopIS