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Update build & CI files to properly use new CI machine

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Merged Ralf Jung requested to merge ci into master Mar 06, 2017
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The title says it all. I have to say your unconventional directory layout (in particular, not using a theories folder) makes it more annoying than it would have to be to update your build system. ;)

If you tell me there's currently no branch somewhere that would break, I'd be happy to introduce a theories folder for you. That would mostly involve git mv coq/ra coq/theories as well as moving Makefile and _CoqProject one folder up, i.e., directly into coq/.

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Source branch: ci