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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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I tried to repair it myself in 3 different applications to no avail. They all seem to get lost in an infinite loop and would not complete the task. Regardless, it appears that Cura is able to make sense out of the file and slice it even with the manifold issues. I could not verify it as 7.5 hours of print time was more than my patience level would allow.