Avoid forcing installation location

Removed doxygen from blaster module in CMakeLists.txt of the root folder. It is still included in dartflo (if it is installed)

Modified CMakeLists.txt files to find amfe in dartflo subdirectory and linked dart, tbox and fwk libs with blast through swig. Changed root run.py file to find amfe.

Contains 2D and 3D developements as well as the api.