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Removed maskUp (no longer needed).
Modifications related to split into thermodynamics.F, dynamics.F o missing initialisations in dynamics.F added o some fields no longer needed in dynamics/thermodynamics deleted o split of calc_diffusivity.F into calc_viscosity.F (plus split of kpp_calc_diff.F into kpp_calc_visc.F) o Modifications of some store directives for TAF
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