Prefix exported symbols with cmaes

As per issue #5 and #7, I renamed various exported symbols. I did this with commands like

```
find . -path ./.git -prune -o -type f -exec sed -i 's/boundary_transformation_/cmaes_boundary_transformation_/g' {} +
```

I tested that the code still compiles (by running the compile script), and that the resulting executables all run. I did not check the results, though.

I'd also like to know from @sherm1 if these changes are what we need in Simbody (as far as the cmaes namespace goes).