MakerBot Print is our newest print-prepration software, which supports native CAD files and STL assemblies,
allows you to interact with all your printers via the Cloud, and many other exciting new features.
You should be able to scale this up and down quite readily. It's made to suit a wide array of containers thanks to the wide top compared to the narrow base / outlet. I design in Rhino so you would need to have Rhino for the original files to be of any use.