Automator - Quicktime question

Hi guys I'm just wandering if there is a way to get automator to use the save as command in quicktime. This is what I would like to achieve:

Select Video Files
Save-as a self contained movie

I have looked in automator and cannot find such an option. I have found it is possible to use export but not save as.

The reason I want to do this is at the moment I have all of me video files in iTunes as unsupported avi files using a referenced .mov file. This works fantastic on my iMac where all my media is stored, but it is not possible for computers connecting to my iMac iTunes library to see these files, instead only actual files. If it is possible to instead make these referenced files stream-able that would be an easier option, but if not I am going to save them all as self contained movies in .mov format so they can be shared. At the moment I am opening each file individually and saving as then importing it into iTunes, I was hoping automator would be able to help me out and speed up this process.

Thanks