Several fixes to global ocean meshes with MALI topography

[xylar]

This merge:

• Fixes MALI ice draft calculation for grounded ice. The ice draft is determined by flotation in floating regions but is equal to the bed elevation in grounded regions. We also include sea_level (currently zero) in the calculation of the ice draft.
• Fixes renormalization of MALI topography. It is first masked to below sea level, then remapped, then renormalized by the ocean fraction (area below sea level).
• Uses the correct target scrip file for topo remapping. We need to use the appropriate unsmoothed or smoothed scrip file, whereas we were previously creating a new MPAS-Ocean scrip file that was always without smoothing.

Checklist

• Document (in a comment titled Testing in this PR) any testing that was used to verify the changes

[xylar]

Testing

I ran the ocean/global_ocean/SOwISC12to30/MALI_topo_AIS_4to20km/mesh test case after:

• setting ocean_includes_grounded=True in two places in compass/ocean/tests/global_ocean/mesh/__init__.py
• setting expand_factor = 2 in mesh.cfg

I now see, as expected:

• the draft is exactly equal to the bed both before and after remapping of the MALI topography in fully grounded regions
• the draft is never below the bed (the water column thickness is non-negative)
• the MALI topography is masked by oceanFrac = bed < 0, as expected
• the remapped MALI topography is renormalized by the remapped oceanFrac as expected: The topography does not drop toward zero at locations where oceanFrac < 1
• the remapped MALI topography in the remap_topo_smoothed step is, in fact, visibly smoother than the remapped topography in the unsmoothed step.
• the combined topography doesn't show any visible jumps at the boundary where landIceFraction has fractional values (used to interpolate between the two topography deatasets)
• the culled mesh removes masked areas of zero bathymetry and ice draft (locations where bathymetry was above sea level before masking)
• on the culled mesh, the 0.27 < oceanFracObserved < 1; areas where oceanFracObserved < 0.5 are few and likely are explained by topological requirements (e.g. adding cells to the ocean to prevent isolated vertices)

For paraview verification, see xdmf files in:

/lcrc/group/e3sm/ac.xylar/compass_1.9/chrysalis/test_20260113/fix-mali-draft-with-smoothing3/ocean/global_ocean/SOwISC12to30/MALI_topo_AIS_4to20km/mesh/*/xdmf_*/

[xylar]

@cbegeman, could you take a look at this when you have time? It likely makes sense to rebase #931 onto this branch.

[cbegeman]

@xylar Can you let me know whether this is what you expect and whether you intend that we would correct the negative water column thicknesses (red in figure below) before the digging phase?

All figures below are plotting the difference between land ice draft and bed elevation

In remap_topography_unsmoothed:

mali_topography_mod, landIceDraftObserved minus bed_elevation:

mali_topography_remapped, landIceDraftObserved minus bed_elevation:

topography_remapped, landIceDraftObserved minus bed_elevation:

[xylar]

The values before remapping in the masked region aren't meaningful. They get culled so negative values are just irrelevant noise. So I think this is expected. I didn't see any negative results after culling in my testing, so I think this is as expected. Thanks for checking.

[cbegeman]

The values before remapping in the masked region aren't meaningful. They get culled so negative values are just irrelevant noise. So I think this is expected. I didn't see any negative results after culling in my testing, so I think this is as expected. Thanks for checking.

I'm a bit confused by your comment. I agree that the red values in the topography_remapped.nc's (landIceDraftObserved minus bed_elevation) are noise, but my interpretation is that this was generated during the remapping to topography_ncremap.nc. And at least some of these negative values in the ice sheet interior wouldn't be culled, we would just dig the bed to accommodate the lower landIceDraft. I don't think it's likely to be too much lower than bed_elevation so I think it's practically not an issue. I was just wondering whether we might want to limit the landIceDraft to bed_elevation here

compass/compass/ocean/mesh/remap_topography.py

Line 316 in b253579

def _modify_remapped_bathymetry(self):

in a similar way as you've done in compass/ocean/tests/global_ocean/mesh/remap_mali_topography/__init__.py

[cbegeman]

Here's what I mean: this is topography_culled.nc

As above, legend title is not correct, this is actually landIceDraftObserved minus bed_elevation