[doxygen] Add some new ingroups in modules.txt and use them in the files.

doc/doxygen/modules.txt

dumux/discretization/porenetwork/fvelementgeometry.hh

dumux/discretization/porenetwork/gridgeometry.hh

dumux/discretization/porenetwork/subcontrolvolume.hh

dumux/discretization/porenetwork/subcontrolvolumeface.hh

dumux/flux/porenetwork/advection.hh

dumux/flux/porenetwork/fickslaw.hh

dumux/flux/porenetwork/fourierslaw.hh

dumux/timestepping/multistagemethods.hh

dumux/timestepping/multistagetimestepper.hh

dumux/timestepping/timelevel.hh