[main] RRFS module update and cleanup

[MatthewPyle-NOAA]

DESCRIPTION OF CHANGES:

• Updates the versions files to update many version numbers, and remove unneeded items.
  BUFR (11.7 --> 12.2)
  cray-mpich (8.1.12 --> 8.1.19)
  cray-pals (1.1.3 --> 1.3.2)
  craype (2.7.13 --> 2.7.17)
  crtm (2.4.0 --> 2.4.0.2)
  emsf (8.4.0 --> 8.8.0)
  g2 (3.4.5 --> 3.5.1)
  g2tmpl (1.15.0 --> 1.16.0, eventually will be 1.17.0)
  gftl_shared (1.5.0 --> 1.6.1 )
  ip (3.3.3 --> 5.2.0)
  landsfcutil, mapl, module, scotch (all removed)
  ncdiag (1.1.1 --> 1.1.2)
  nemsio (2.5.2 --> 2.5.4)
  adds pnetcdf (1.12.2)
  PrgEnv_Intel (8.1 --> 8.5)
  sp (2.3.3 --> 2.4.0)
  w3emc (2.9.2 --> 2.12.0)
  nco (5.0.6 --> 5.2.4)

• Updates build and task module files to point at things like "netcdf-D", and new needs for HDF5 and/or pnetcdf (some based on testing, some speculative additions)

• Points at a GSI fork with some small changes for BUFR/12.2

TESTS CONDUCTED:

• Limited testing so far using the dev-sci non-DA tests. Does change answers a bit in this testing, and expect this will take significant testing to make sure we are comfortable with running it in the real-time parallel.

Machines/Platforms:

• WCOSS2
  • Cactus/Dogwood
  • Acorn
• RDHPCS
  • Hera
  • Jet
  • Orion
  • Hercules

Test cases:

• Engineering tests
  • Non-DA engineering test
  • DA engineering test
    • Retro
    • Ensemble
    • Parallel
• RRFS fire weather
• RRFS_A:
• RRFS_B:
• RTMA:
• Others:

ISSUE:

• Fixes the issue(s) mentioned in [main] Update versions files for production #808, [main] module path used in main branch #894

CONTRIBUTORS (optional):

@Hang-Lei-NOAA provided some early help on getting this started. @JamesPolly-NCO provided other information on what is needed for production.

[lgannoaa]

We have two main questions regarding this PR:

1. Module Path Assignments
   Since the module path now points to the production area for module loading, can we remove the hardcoded development path assignments (modulepath_compiler, modulepath_mpi, and modulepath_scotch) from the run.var file?

2. GSI Package Update (Hash dd35b93)
   The GSI hash has been updated to dd35b93. This raises a few concerns, given that we have informed management and NCO that the RRFS project is currently on science freeze:
   Is this update considered a science upgrade?
   Will this change impact the scientific results?
   What is the justification for updating the GSI package at this stage of the project?

[MatthewPyle-NOAA]

@lgannoaa Things built okay after stripping out the modulepath definitions from build.ver, and associated use in the build modulefile. So do think we can clean that aspect up. On the GSI update, it isn't a science change. It is just allowing it to compile with BUFR/12.2. Want to do a simple run test before pushing an updated run.ver file.

[MatthewPyle-NOAA]

Should be ready for another look now. Note @ShunLiu-NOAA that I made a change to the GSI ex-script as part of the cleanup.

[lgannoaa]

Thank you @MatthewPyle-NOAA. It looks good to me.

[ShunLiu-NOAA]

@MatthewPyle-NOAA the changes looks good to me.

[BenjaminBlake-NOAA]

@MatthewPyle-NOAA the modulefile changes look good to me. I'm happy to assist with generating some comparison graphics to better evaluate the differences once we have some output available.