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Update merra2_thompson from Dom #1

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climbfuji
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@AnningCheng-NOAA please review and merge if ok. Thanks!

climbfuji and others added 20 commits August 18, 2021 14:29
* Update order of variable definition files in ccpp/config/ccpp_prebuild_config.py
* Remove duplicate variables in ccpp/data/GFS_typedefs.meta
… suite definition files (NOAA-EMC#371)

* address error entered in stochastic_physics_wrapper.F90 that broke the ca restart reproducibility
* Remove scheme rayleigh_damp from all remaining suite definition files

Co-authored-by: Lisa Bengtsson <Lisa.Bengtsson@noaa.gov>
* io/FV3GFS_io.F90 updated to use fms2_io
* atmos_model.F90 and ccpp/data/GFS_typefs.F90 updates to input_nml_file handling
* atmos_cubed_sphere submodule updated
This PR brings in the latest release candidate for the FV3 dycore for use in the UFS.  This PR will change answers for regional tests as well as any test using ICs generated from specific sources to chgres (when data_source_fv3gfs=.TRUE. logical within the dycore external_ic)
… feedback to FV3ATM (NOAA-EMC#376)

Add a cplocn2atm namelist option to turn on/off the ocean model component feedback (e.g., SST) to the atmosphere model component.
…s.2021.03, IAU bug fix for restart files (NOAA-EMC#379)

* CCPP metadata bugfixes in ccpp/data/GFS_typedefs.meta
* fix the restart interval for iau

Co-authored-by: Jun.Wang <Jun.Wang@noaa.gov>
* Clean up ccpp/CMakeLists.txt, because the associated PRs for ccpp-framework and ccpp-physics now define their targets and dependencies correctly.
* Move the CMake build of the dycore from fv3atm into GFDL_atmos_cubed_sphere
* Clean up the fv3atm CMakeLists.txt

Co-authored-by: Dom Heinzeller <dom.heinzeller@icloud.com>
…EMC#391)

* update ccpp with CCPP PR#731
* add FV3 standalone P7 suite file
* fix the filename with full time stamp for netcdf output
* update ccpp with decomposition fix
…OAA-EMC#402)

Substantial changes in UGWPv1 to fix problem of lack of reproducibility when changing the domain decomposition layout.
…C#396)

* This PR contains updates for new ca code, it fixes the CA restart and decomposition issues. Code changes are also in CCPP physics PR and stochastic physics PR.
* remove unused coupled suites
* delete v15p2 coupled suites
* update filename when the output time is not integer hours
* fix the diag time issue with output_fh

Co-authored-by: Denise Worthen <denise.worthen@noaa.gov>
Co-authored-by: Jun Wang <junwang-noaa@users.noreply.github.com>
…nteger arrays without affecting input/output files (NOAA-EMC#388)

* Make real vegetation, slope and soil type integers, remove unnecessary interstitial arrays
* Add interstitial variables to save and restore vegetation/soil/slope types before/after surface physics
* Make vegetation/soil/slope save variables persistent so that they can be used in the _init phases
* Only allow nearest-neighbor interpolation method for integer data
* Remove legacy code from CMakeLists.txt
…NOAA-EMC#406)

* Ensure timestamp of imported fields is set before checking the time.
* Add missing specialization method to verify import fields for run phase 1.
@climbfuji climbfuji marked this pull request as ready for review October 7, 2021 20:22
@AnningCheng-NOAA AnningCheng-NOAA merged commit 7761101 into AnningCheng-NOAA:merra2_thompson Oct 7, 2021
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AnningCheng-NOAA pushed a commit that referenced this pull request Jan 8, 2024
* In GFS_diagnostics make LAI, WILT and FLDCP be outputted with all LSMs. Also, output of LAI should
not depend on RDLAI.

* In GFS_typedefs.* add surface heat flux from the fire for use in RUC LSM.

* Fix hail size output diagnostic array size (#1)

* Added one more variable - frac_grid_burned_out - to GFS_typedefs.F90.
Also, the surface heat flux from fires and frac_grid_burned_out are added to the
model output in GFS_diagnostics.F90.

---------

Co-authored-by: tanyasmirnova <tanya.smirnova@noaa.gov>
Co-authored-by: Anders Jensen <anders.jensen@noaa.gov>
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