I wrote a little python script that takes the tool name (the thing at the top of the xml wrapper file) as a parameter and reloads it.
Setup: Run this command
curl --cookie-jar galaxy_cookie.txt --data-ascii 'email=YOUR_EMAIL_NAME%40GMAIL.COM&webapp=galaxy&password=YOUR_PASSWORD&login_button=Login' YOUR_GALAXY_WEBPAGE/user/login
and afterwards make sure the galaxy-cookie.txt file is in the same directory as the python script.
Next, if your instance isn't on localhost:8080, update the python file and change the localhosts to your instance's address.
Run the python script as