Fixing up the doxygen comments.
Added OpenMP speedups to bowmsctrainer.cpp
Merged in OpenMP speedups.
OMP speedup for CLT.
Fixed up and improved OMP speedups.
More openmp polishing
Merged omp speedups.
Merge pull request #2 from utiasASRL/feat/cmake-refresh

merging project config changes (doxygen, .gitignore)
adding files for updated MSC but not integrated into project yet
Merge branch 'origin/master' into develop
Merge from develop