Main reason for modification is the getFlux function, which for
particular processes (ComponentTransport) relies on all solutions being
available.
This modification ripples through all of the code, especially through
the boundary conditions.
Modified `applyNaturalBC`, `preTimestep`, `integrate`, and `assemble`
functions.

Fixes multiple copyright messages in the doxygen docu.

ag '\\file' -L --ignore=ThirdParty *Lib |xargs  sed -i 's/\(.*\)\\copyright/\1\\file\n\1\\copyright/'

Clang format run on near-the-header lines.

Happy New Year

Mainly the shape matrices are affected.