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Clean up MPAS-Hydro repo to allow for generic nuopc cap development #4

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@anntsay

MPAS-Hydro has a head start on a nuopc cap for MPAS standalone. (Soren/Dan).
MPAS NUOPC cross project sync meeting: Soren agree to clean up the code base to allow for generic nuopc cap development across Hydro, LIS, and MOM6. (Fire model not funded yet).

https://github.com/NCAR/MPAS-Model-NUOPC-dev/tree/mpas-hydro

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