[Windows] Fix location of registry settings.

This was broken in commit d428759ee928aa0e4ea96eef177c3f331ba646c2
resulting in the installer setting some settings that the IDE was
then not reading.
Merge pull request #389 from waywardmonkeys/windows-fixes

[Windows] Fix location of registry settings.
[doc] Bump bootstrap version in theme.
[crt] Fix inline declarations to work with clang.

This doesn't actually change the generated code in the places
that I looked at as the compiler was already deciding to inline.
[crt] Use likely/unlikely.
[crt] Fix sh syntax in Makefile.

This part of the target is only used on OS X, so the error didn't
break anything previously.