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Steps for the GCHP v11-02b 1-year benchmark data preparation
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----------------------------
GCHP v11-02b/v1.1.0 (dev):
----------------------------

1) Compile GCHP code: 

   	   - gc_bleeding_edge tag v11-02b
	   - gchp tag v1.1.0

2) Run 1-year spinup in:

       ./gchp_c24_standard_spinup/

3) Copy spinup checkoutpoint file to:
   (NOTE: this is done automatically by the run script):

       ./gchp_c24_standard_production/

4) Run 1-year production in:
   
       ./gchp_c24_standard_production/

5) Calculate monthly mean from daily output files using:

       ../util/gchp_monthly_mean_from_daily.sh

6) Store monthly data in:

       ../gchp_c24_standard_production/OutputDir/monthly_c24_SPC/

7) Regrid monthly files from c24 to 1x1.25 using:

       ../util/regrid_02b.m

8) Store monthly regridded data in:

       ../gchp_c24_standard_production/OutputDir/monthly_1x1.25_SPC

9) Change 1x1.25 variable name prefixes from SPC_ to IJ_AVG_S__ using python 2:

       ../change_SPC_to_IJ.py

10) Store 1x1.25 monthly data with IJ_AVG_S__ prefix in:

       ../gchp_c24_standard_production/OutputDir/monthly_1x1.25_IJ_AVG


---------------------
GCC v11-02a (ref):
---------------------

1) Copy v11-02a 1-year Run1 directory including monthly netcdf files to:

       ../../v11-02a/Run1

2) Store original netcdf-3 files in:

       ../../v11-02a/Run1/netcdf/orig/

3) Convert netcdf-3 files to netcdf-4 using:

       nccopy -k infile outfile

4) Store netcdf-4 files in:

       ../../v11-02a/Run1/netcdf/nc4/

5) Regrid netcdf-4 files from 4x5 to 1x1.25 using:

       ../../v11-02a/util/regrid_02a.m

6) Store regridded data in:

       ../../v11-02a/Run1/netcdf/nc4_regridded_IJ_AVG

7) Convert v11-02a regridded variable prefix IJ_AVG_S__ to SPC_ using:
   
       ../../v11-02a/util/change_IJ_to_SPC.py

8) Store v11-02a SPC_ data in:

       ../../v11-02a/Run1/netcdf/nc4_regridded_SPC

%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
Steps for the GCHP v11-02b 1-year benchmark data comparison
%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%

--------------------------------------------------
Traditional 1-year benchmark using IDL/GAMAP:
--------------------------------------------------

1) Compare data in:

       ../../v11-02a/Run1/netcdf/nc4_regridded_IJ_AVG
       ../gchp_c24_standard_production/OutputDir/monthly_1x1.25_IJ_AVG



---------------------------------------------------------
Supplemental comparison using 1-month benchmark python code:
---------------------------------------------------------


3) Generate monthly comparison plots comparing data in:

       ../../v11-02a/Run1/netcdf/nc4_regridded_SPC
       ../gchp_c24_standard_production/OutputDir/monthly_1x1.25_SPC

   by using:

       ../../internal_comparison/GCC_vs_GCHP_v11-02b_1yr.py
 
   NOTE: You must load python 3, activate GCPy virtual environment,
         and add GCPy to your PYTHONPATH env var. See GCPy bitbucket readme.