If I understand correctly when the workflow finishes you would like you would like to have a pop out window to the user, rather than seeing the data within the results. If so, you will have to use a run command tool to create this. I have attached a workflow which shows you how this could wok within an app.
All you will need is to attach the run command tool at the end of the workflow so it pops out when the workflow finishes.
***Disclaimer: This workflow does have a run command tool in it, so depending upon your Machine setup it may prevent this workflow from running.