If you're updating a sevice you'll need to stop the sevice before the update and start it after the update. wyUpdate handles the details. See Starting and Stopping Windows Services.
Tell me if this helps.
Update GUI/Service at the same time
Hello,
As far as the update process goes, if the update starts up and there is a change to a service and windows form application, does it detect automatically that the service is indeed a service and reinstalls over the old installation?
If I am using the auto updater component within the Service, is it possible to use the UpdateType.CheckOnly and display a confirmation message to the user or is it limited to UpdateType.Automatic?
Well, you're in a Windows Service, so you really can't display anything. Unless you're talking about IPC between your service and your app. In which case, yes it's possible.