configure: using -isystem instead of -I for 3rd party headers
configure: using -isystem instead of -I for 3rd party headers

This is the correct thing to do:
https://gcc.gnu.org/onlinedocs/cpp/System-Headers.html

It also kills quite a few warnings generated from system headers,
including Qt and Eigen.

MRtrix3/mrtrix3,MRtrix3/mrtrix3,MRtrix3/mrtrix3,MRtrix3/mrtrix3,MRtrix3/mrtrix3,MRtrix3/mrtrix3