Various wave updates: Reformat WW3 inputs; enable PIO for wave restarts; enable WW3 cycling; synchronize UFS restart writes; add uglo_15km WW3 grid

[JessicaMeixner-NOAA]

Description

This PR adds the following:

• converting from inp -> nml (@sbanihash)
• turning on PIO for waves for restarts (@sbanihash)
• enabling cycling for WW3 which required some updates to wave prep jobs + changing what restarts are being saved/etc
• changed the way CEMPS, MOM6, CICE and WW3 write restarts to be in sync with FV3 for IAU, which required moving the ufs-weather-model forward one hash to use the new flexible restart feature. (UFS PR Flexible restart write times (restart_fh) for med, ocn, ice, wav ufs-community/ufs-weather-model#2419)
• adds uglo_15km - the targeted new wave grid.
• Update to use new esmf_threading ufs.configure files which changes the toggle between how you use esmf threading versus traditional threading (UFS PR Sync with ESCOMP/CDEPS (2024-12-16) + Add support for traditional threading (#2533) ufs-community/ufs-weather-model#2538)

Notes on ufs-weather-model updates:

Commit date	Commit hash/ PR	Notes for g-w changes	Baseline Changes
Dec 11, 2024	ufs-community/ufs-weather-model@409bc85 ufs-community/ufs-weather-model#2419	Enables flexible restart writes - changes included in g-w PR	none
Dec 16, 2024	ufs-community/ufs-weather-model@6ec6b45 ufs-community/ufs-weather-model#2528 ufs-community/ufs-weather-model#2469	n/a	HAFs test changes, no global changes
Dec 18, 2024	ufs-community/ufs-weather-model@e119370 ufs-community/ufs-weather-model#2448	Adds Gaea C6 support (changes in other g-w PRs, not here)	none
Dec 23, 2024	ufs-community/ufs-weather-model@2950089 ufs-community/ufs-weather-model#2533 ufs-community/ufs-weather-model#2538	changes for ESMF vs traditional threading	none
Dec 30, 2024	ufs-community/ufs-weather-model@241dd8e ufs-community/ufs-weather-model#2485	n/a	changes in conus13km, no global changes
Jan 3, 2025	ufs-community/ufs-weather-model@76471dc ufs-community/ufs-weather-model#2530	n/a	changes in regional tests, no global changes

Note this PR requires the following:

• update to fix files to add uglo_15km
• staging ICs for high resolution test case for uglo_15km

Co-author: @sbanihash

Related Issues:

• Fixes updates from RTs for wave restart name and nml files #1457
• Fixes Update to use new WW3 grid, targeted for GFSv17 #3154
• Fixes Cycled waves for GFSv17 #1795
• related to Enable IAU across components in the coupled model #1776

Type of change

• Bug fix (fixes something broken)
• New feature (adds functionality)

Change characteristics

• Is this a breaking change (a change in existing functionality)? NO
• Does this change require a documentation update? YES/NO
• Does this change require an update to any of the following submodules? YES (If YES, please add a link to any PRs that are pending.)
  • EMC verif-global
  • GDAS
  • GFS-utils
  • GSI
  • GSI-monitor
  • GSI-utils
  • UFS-utils
  • UFS-weather-model Flexible restart write times (restart_fh) for med, ocn, ice, wav ufs-community/ufs-weather-model#2419 (Already merged)
  • wxflow

How has this been tested?

Tests were done by adding waves to C48mx500 3DVar tests for cycling.
High resolution tests cases were also added.

This likely needs a new round of testing before CI and after staged ICs & new fix files are added.

Checklist

• Any dependent changes have been merged and published
• My code follows the style guidelines of this project
• I have performed a self-review of my own code
• I have commented my code, particularly in hard-to-understand areas
• I have documented my code, including function, input, and output descriptions
• My changes generate no new warnings
• New and existing tests pass with my changes
• This change is covered by an existing CI test or a new one has been added
• Any new scripts have been added to the .github/CODEOWNERS file with owners
• I have made corresponding changes to the system documentation if necessary

[aerorahul]

Thanks for the cleanup. A few suggestions to make the distinction between binary and netcdf restarts explicit.

[aerorahul]

looks good to me.
We can set the labels to test if you are ready for it.

[JessicaMeixner-NOAA]

looks good to me. We can set the labels to test if you are ready for it.

fix files are still needed and I'm working to stage high-res ICs. Running a last test or two before I'm ready to pass off the fix files. Also - as soon as #3188 is merged, there will be conflicts to resolve.