Alterations to Projection FCI Code and AFQMC Code

Fixed the computation of density matrices and wave functions in the FCI
Code to be in a representation comparable to that given by the AFQMC
Code. Updated AFQMC code to properly calculate energies given density
matrices. Changed some physicist notation to chemist notation in the
AFQMC code to accommodate the imported matrix elements. AFQMC code now
readily does chemistry calculations. Some slight lingering errors being
worked on now having to do with the interacting case.