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fixed mild Future Warning (and use reST for README) #1

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@orbeckst orbeckst commented Apr 3, 2015

Hi Josh,
I fixed the comparisons in the standalone qcprot that I had also fixed a while back in MDAnalysis.
I also converted the README to a reST file, which displays more nicely on GitHub. Merging was bit messy and my rebase skills were inadequate to make the history nice so feel free to pick and choose what you like.
Oliver

- changed both setup*.py files
- removed the explicit set CFLAGS advice from README
- Future Warning: comparison to `None` will result in an
  elementwise object comparison in the future
  (Replaced "== None" with "is None" and same for "!=" and "is not")
- rebuilt .c file with cython 0.22
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