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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.

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Another option is to simply weigh all your plastic parts. As far as I know, there's no discernible loss of plastic when you're turning filament into parts, so as long as you know what your original spool of filament cost and how much it weighed, you can figure out what your parts cost.