Update entry documentation of all C++ source code files

src/cluster/cluster.cpp

src/cluster/np_cluster.cpp

src/include/Configuration.h

src/include/List.h

src/include/Parsers.h

src/libnptm/Commons.cpp

src/libnptm/Configuration.cpp

src/libnptm/Parsers.cpp

src/sphere/np_sphere.cpp

src/sphere/sphere.cpp

src/trapping/cfrfme.cpp

src/trapping/clffft.cpp

src/trapping/np_trapping.cpp