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GFDL to main 2024-05-16#1627

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marshallward wants to merge 107 commits intomom-ocean:mainmom-ocean/MOM6:mainfrom NOAA-GFDL:gfdl-to-main-2024-05-16NOAA-GFDL/MOM6:gfdl-to-main-2024-05-16Copy head branch name to clipboard

+12,990-8,388

Commits

Commits on Nov 22, 2023

• Use a class to deliver elemental procedures for EOS

  Show description for d8579d2
  

  adcroft

  authored and

  marshallward

  committed
  d8579d2

• Add rule and workflow to compare results of micro-timing tests

  Show description for 7cc191a
  

  adcroft

  authored and

  marshallward

  committed
  7cc191a

Commits on Nov 23, 2023

• Add units to comments in MOM_neutral_diffusion

  Show description for 34b880f
  

  Hallberg-NOAA

  authored and

  marshallward

  committed
  34b880f

Commits on Nov 27, 2023

• Fix unpaired parentheses in a formatting string

  Show description for 11759d6
  

  Hallberg-NOAA

  authored and

  marshallward

  committed
  11759d6

Commits on Dec 14, 2023

• +(*)Add continuity_fluxes & continuity_adjust_vel

  Show description for b898297
  

  Hallberg-NOAA

  authored and

  marshallward

  committed
  b898297

• +Pass-through from continuity_PPM via continuity

  Show description for fc0bef1
  

  Hallberg-NOAA

  authored and

  marshallward

  committed
  fc0bef1

• +Create zonal_edge_thickness in MOM_continuity_PPM

  Show description for 6b86ab8
  

  Hallberg-NOAA

  authored and

  marshallward

  committed
  6b86ab8

• +Call zonal_edge_thickness outside of zonal_mass_flux

  Show description for d3496fe
  

  Hallberg-NOAA

  authored and

  marshallward

  committed
  d3496fe

• +Add zonal_BT_mass_flux & meridional_BT_mass_flux

  Show description for bbda30f
  

  Hallberg-NOAA

  authored and

  marshallward

  committed
  bbda30f

• +Add continuity_zonal_convergence

  Show description for a70482c
  

  Hallberg-NOAA

  authored and

  marshallward

  committed
  a70482c

• Move continuity_fluxes to MOM_continuity_PPM.F90

  Show description for 6b6f8dc
  

  Hallberg-NOAA

  authored and

  marshallward

  committed
  6b6f8dc

• +Add optional argument du_cor to continuity_PPM

  Show description for 7877292
  

  Hallberg-NOAA

  authored and

  marshallward

  committed
  7877292

Commits on Dec 15, 2023

• Makedep: Include support for CPP condition blocks

  Show description for 7d334f8
  

  marshallward

  authored and

  adcroft

  committed
  7d334f8

• +Standardize input salinity units as "ppt"

  Show description for 4e8fbe1
  

  Hallberg-NOAA

  authored and

  adcroft

  committed
  4e8fbe1

Commits on Dec 18, 2023

• Merge branch 'main' into dev/gfdl

  marshallward

  committed
  8395404

Commits on Dec 19, 2023

• Fix for an OBC issue with mask_tables

  Show description for a28443b
  

  kshedstrom

  authored and

  marshallward

  committed
  a28443b

• +FIX_USTAR_GUSTLESS_BUG is now USTAR_GUSTLESS_BUG

  Show description for 5c14668
  

  Hallberg-NOAA

  authored and

  marshallward

  committed
  5c14668

Commits on Dec 20, 2023

• This commit guarantees consistency of the ice sheet code under rotated/flipped input and grids, and under dimensional rescaling to the +/-140 power. Bitwise identical results were achieved under ro…

  Show description for 7ddc727
  

  alex-huth

  authored and

  marshallward

  committed
  7ddc727

• fixed documentation of inputs to subroutine sum_square_matrix

  

  alex-huth

  authored and

  marshallward

  committed
  b0ff6bd

• Optimized sub-cell grounding subroutines, increasing computational efficiency

  

  alex-huth

  authored and

  marshallward

  committed
  f7233e0

• fixed documented units of fN and fN_scale for ice shelf coulomb friction law

  

  alex-huth

  authored and

  marshallward

  committed
  d7096bd

• Rename u arg to step_MOM_dyn_split_RK2 as u_inst

  Show description for 90de5de
  

  Hallberg-NOAA

  authored and

  marshallward

  committed
  90de5de

Commits on Dec 21, 2023

• +FIX_UNSPLIT_DT_VISC_BUG is now UNSPLIT_DT_VISC_BUG

  Show description for eac3bb3
  

  Hallberg-NOAA

  authored and

  marshallward

  committed
  eac3bb3

Commits on Dec 22, 2023

• +Add MOM_dynamics_split_RK2b enabled by SPLIT_RK2B

  Show description for 2ea0ac3
  

  Hallberg-NOAA

  authored and

  marshallward

  committed
  2ea0ac3

• *+Revise algorithm in step_MOM_dyn_split_RK2b

  Show description for 8b98bd0
  

  Hallberg-NOAA

  authored and

  marshallward

  committed
  8b98bd0

• Regroup MOM_dynamics_split_RK2b halo updates

  Show description for 9d57c15
  

  Hallberg-NOAA

  authored and

  marshallward

  committed
  9d57c15

• +Correct description of SPLIT_RK2B

  Show description for 5137442
  

  Hallberg-NOAA

  authored and

  marshallward

  committed
  5137442

Commits on Jan 9, 2024

• +Add cuberoot function

  Show description for a03bb95
  

  Hallberg-NOAA

  authored and

  marshallward

  committed
  a03bb95

Commits on Jan 18, 2024

• Update Gaea F5 datasets path

  Show description for d7d126a
  marshallward

  committed
  d7d126a

Commits on Jan 26, 2024

• *Use Halley method iterations in cuberoot function

  Show description for 4813b17
  

  Hallberg-NOAA

  authored and

  marshallward

  committed
  4813b17

• Cuberoot: Apply first iteration explicitly (#11)

  Show description for 17f1c40
  marshallward

  committed
  17f1c40

Commits on Jan 29, 2024

• Data table documentation (#551)

  Show description for 435ccaa
  ashjbarnes

  authored
  435ccaa

Commits on Jan 31, 2024

• Params: Add do_not_log to param block open/close

  Show description for f1e0f01
  marshallward

  committed
  f1e0f01

• Open parameter block before querying BODNER23

  Show description for 5ca70ba
  

  kshedstrom

  authored and

  marshallward

  committed
  5ca70ba

Commits on Feb 1, 2024

• (*)Oil_tracer_column_physics unit conversion fix

  Show description for 541c2f4
  

  Hallberg-NOAA

  authored and

  marshallward

  committed
  541c2f4

Commits on Feb 2, 2024

• (*)Avoid using RHO_0 in non-Boussinesq averaging

  Show description for 76f0668
  

  Hallberg-NOAA

  authored and

  marshallward

  committed
  76f0668

• Intrinsics: Faster cuberoot scaling functions

  Show description for 60cb551
  

  marshallward

  authored and

  Hallberg-NOAA

  committed
  60cb551

• Cuberoot: Refactor (re|de)scale functions

  Show description for 5edba9b
  

  marshallward

  authored and

  Hallberg-NOAA

  committed
  5edba9b

• Cuberoot: Break **3 into explicit integer cubes

  Show description for 736ef16
  

  marshallward

  authored and

  Hallberg-NOAA

  committed
  736ef16

Commits on Feb 5, 2024

• (*)Use cuberoot in ePBL_column

  Show description for 671c85d
  

  Hallberg-NOAA

  authored and

  marshallward

  committed
  671c85d

Commits on Feb 7, 2024

• *Fix two bugs in convert_temp_salt_for_TEOS10

  Show description for 07bace6
  

  Hallberg-NOAA

  authored and

  marshallward

  committed
  07bace6

• +ALE_remap_scalar with arbitrary thickness units

  Show description for 915cfe2
  

  Hallberg-NOAA

  authored and

  marshallward

  committed
  915cfe2

• (*)MOM_temp_salt_init_from_Z Z-unit tracer remap

  Show description for e7a7a82
  

  Hallberg-NOAA

  authored and

  marshallward

  committed
  e7a7a82

• *+non-Boussinesq revisions to MOM_generic_tracer

  Show description for 9a6ddee
  

  Hallberg-NOAA

  authored and

  marshallward

  committed
  9a6ddee

Commits on Feb 8, 2024

• Fix issue with restart filenames when using ensembles.

  Show description for ea12532
  

  wfcooke

  authored and

  marshallward

  committed
  ea12532

• +(*)Bodner param with cuberoot and non-Boussinesq

  Show description for 9282cd1
  

  Hallberg-NOAA

  authored and

  marshallward

  committed
  9282cd1

• Remove some unused calculations if non-Boussinesq

  Show description for 4757bcb
  

  Hallberg-NOAA

  authored and

  marshallward

  committed
  4757bcb

Commits on Feb 9, 2024

• Document MOM_regridding and coord variable units

  Show description for de7e5b7
  

  Hallberg-NOAA

  authored and

  marshallward

  committed
  de7e5b7

Commits on Feb 13, 2024

• Document core and linear EOS variable units

  Show description for c37a2f0
  

  Hallberg-NOAA

  authored and

  marshallward

  committed
  c37a2f0

Commits on Feb 14, 2024

• +(*)non-Boussinesq ALE_sponges work in Z units

  Show description for 0fb905f
  

  Hallberg-NOAA

  authored and

  marshallward

  committed
  0fb905f

Commits on Feb 15, 2024

• (*)Use thickness_to_dz with BRYAN_LEWIS_DIFFUSIVITY

  Show description for f14a681
  

  Hallberg-NOAA

  authored and

  marshallward

  committed
  f14a681

Commits on Feb 21, 2024

• +tracer_Z_init can rescale tracers

  Show description for 3f7465a
  

  Hallberg-NOAA

  authored and

  marshallward

  committed
  3f7465a

Commits on Feb 25, 2024

• Update MOM_mixed_layer_restrat.F90 (#568)

  Show description for f92e4ac
  

  3 peopleauthored
  f92e4ac

Commits on Feb 28, 2024

• Merge branch 'main' into dev/gfdl

  marshallward

  committed
  e69d771

• MLE: Use default answer date outside of block (#570)

  Show description for f2e7abf
  marshallward

  authored
  f2e7abf

• (*)Fix bug in h_neglect used to remap diags to rho

  Show description for 86c5ed9
  

  Hallberg-NOAA

  authored and

  marshallward

  committed
  86c5ed9

Commits on Feb 29, 2024

• (*)non-Boussinesq Z unit update_OBC_segment_data

  Show description for 8f7df08
  

  Hallberg-NOAA

  authored and

  marshallward

  committed
  8f7df08

• *Corrected CFC diagnostics and non-Bous CFC fluxes

  Show description for d0e9c25
  

  Hallberg-NOAA

  authored and

  marshallward

  committed
  d0e9c25

Commits on Mar 2, 2024

• Pinning package requirements for readthedocs

  Show description for fd5696b
  

  adcroft

  authored and

  marshallward

  committed
  fd5696b

Commits on Mar 5, 2024

• Create BUILD and WORK directory macros

  Show description for f9da673
  marshallward

  committed
  f9da673

Commits on Mar 6, 2024

• Refactor set_viscous_BBL channel drag calculations

  Show description for 2ae6385
  

  Hallberg-NOAA

  authored and

  marshallward

  committed
  2ae6385

• +Add find_L_open_concave_iterative

  Show description for da02ffc
  

  Hallberg-NOAA

  authored and

  marshallward

  committed
  da02ffc

• Add the debugging routine test_L_open_concave

  Show description for e1ea758
  

  Hallberg-NOAA

  authored and

  marshallward

  committed
  e1ea758

• Minor refactoring in set_viscous_BBL

  Show description for 714d2da
  

  Hallberg-NOAA

  authored and

  marshallward

  committed
  714d2da

Commits on Mar 9, 2024

• Compute dz in the halo for OBC segments

  Show description for 6153d97
  

  kshedstrom

  authored and

  marshallward

  committed
  6153d97

• +Fix myStats global indexing segmentation faults

  Show description for 0ff03ae
  

  Hallberg-NOAA

  authored and

  marshallward

  committed
  0ff03ae

Commits on Mar 11, 2024

• (*)Fix apply_topography_edits_from_file indexing

  Show description for 0bd4c16
  

  Hallberg-NOAA

  authored and

  marshallward

  committed
  0bd4c16

Commits on Mar 12, 2024

• Earlier initialization thickness halo updates

  Show description for 9e78615
  

  Hallberg-NOAA

  authored and

  marshallward

  committed
  9e78615

• +(*)Refactor MOM_diag_remap for global indices

  Show description for 1ae2a3a
  

  Hallberg-NOAA

  authored and

  marshallward

  committed
  1ae2a3a

• +(*)Use z-space remapping for some diagnostics

  Show description for d311b1d
  

  Hallberg-NOAA

  authored and

  marshallward

  committed
  d311b1d

• +(*)Fix downsample_mask indexing bugs

  Show description for 611f575
  

  Hallberg-NOAA

  authored and

  marshallward

  committed
  611f575

Commits on Mar 13, 2024

• (*)Eliminate IIm1 and JJm1 in Update_Stokes_Drift

  Show description for 2bc04bd
  

  Hallberg-NOAA

  authored and

  marshallward

  committed
  2bc04bd

Commits on Mar 14, 2024

• Document remapping function variable units

  Show description for 744dbcc
  

  Hallberg-NOAA

  authored and

  marshallward

  committed
  744dbcc

Commits on Mar 15, 2024

• fix gtracer restart repro issue with OBC

  

  yichengt900

  authored and

  marshallward

  committed
  a23c7d8

Commits on Mar 16, 2024

• Rotation bugfixes

  Show description for 4fd0162
  

  marshallward

  authored and

  Hallberg-NOAA

  committed
  4fd0162

Commits on Mar 21, 2024

• +Rotationally symmetric neutral diffusion option

  Show description for 32f6316
  

  Hallberg-NOAA

  authored and

  marshallward

  committed
  32f6316

Commits on Mar 26, 2024

• Add an option in hor_visc to use cont thickness

  Show description for 812510b
  

  herrwang0

  authored and

  marshallward

  committed
  812510b

• fix opemmp parallel

  

  herrwang0

  authored and

  marshallward

  committed
  37ff301

Commits on Mar 27, 2024

• Set up auxiliary domain for unrotated grid

  Show description for 2b59089
  

  Hallberg-NOAA

  authored and

  marshallward

  committed
  2b59089

Commits on Apr 1, 2024

• Set flags properly for rotated tripolar grids

  Show description for 5e34f48
  

  Hallberg-NOAA

  authored and

  marshallward

  committed
  5e34f48

Commits on Apr 2, 2024

• +Add get_netcdf_filename for a get_field_nc error

  Show description for f9372f3
  

  Hallberg-NOAA

  authored and

  marshallward

  committed
  f9372f3

Commits on Apr 5, 2024

• +Rotationally symmetric epipycnal diffusion option

  Show description for a3fd1f3
  

  Hallberg-NOAA

  authored and

  marshallward

  committed
  a3fd1f3

• Merge branch 'main' into main_to_dev_20240405

  marshallward

  committed
  a71fbce

Commits on Apr 10, 2024

• (*)Pass dz to user initialize_ALE_sponge calls

  Show description for 2d121dc
  

  Hallberg-NOAA

  authored and

  marshallward

  committed
  2d121dc

Commits on Apr 12, 2024

• (*)Avoiding using RHO_0 in non-Boussinesq debugging

  Show description for c86358b
  

  Hallberg-NOAA

  authored and

  marshallward

  committed
  c86358b

• Add units to the descriptions of 141 variables

  Show description for 43b2a43
  

  Hallberg-NOAA

  authored and

  marshallward

  committed
  43b2a43

Commits on Apr 13, 2024

• Add units to the descriptions of 115 variables

  Show description for b98acd8
  

  Hallberg-NOAA

  authored and

  marshallward

  committed
  b98acd8

Commits on Apr 15, 2024

• Disable codecov upload requirement

  Show description for 5b9ae52
  

  marshallward

  authored and

  adcroft

  committed
  5b9ae52

• CPP expression parser for makedep

  Show description for 6f1c79e
  

  marshallward

  authored and

  adcroft

  committed
  6f1c79e

Commits on Apr 17, 2024

• (*)Fix Stokes drift spectrum rescaling

  Show description for 3a3baf1
  

  Hallberg-NOAA

  authored and

  marshallward

  committed
  3a3baf1

Commits on Apr 18, 2024

• Fix for using tidal amplitude in determining the BBL thickness

  Show description for 6c44c5f
  

  adcroft

  authored and

  marshallward

  committed
  6c44c5f

Commits on Apr 19, 2024

• Perf: Better error report for failed parsing

  Show description for f7a4491
  marshallward

  committed
  f7a4491

Commits on Apr 20, 2024

• Better document variable units in 3 user modules

  Show description for 1c4d0dc
  

  Hallberg-NOAA

  authored and

  marshallward

  committed
  1c4d0dc

Commits on Apr 22, 2024

• Proto-type cricital latitude modification of Henyey

  Show description for 0efe83d
  

  adcroft

  authored and

  marshallward

  committed
  0efe83d

Commits on Apr 23, 2024

• Document units of 34 real variables in vertFPmix

  Show description for 01b2ea9
  

  Hallberg-NOAA

  authored and

  marshallward

  committed
  01b2ea9

Commits on Apr 30, 2024

• Refactoring density integrals for efficiency

  Show description for 4058462
  

  Hallberg-NOAA

  authored and

  marshallward

  committed
  4058462

Commits on May 2, 2024

• Allow ALE boundary extrapolation behaviour to differ at initialisation and in model run

  Show description for 25989ad
  claireyung

  authored
  25989ad

Commits on May 3, 2024

• +Rotationally symmetric KPP_smooth_BLD option

  Show description for 46fd6e6
  

  Hallberg-NOAA

  authored and

  marshallward

  committed
  46fd6e6

Commits on May 7, 2024

• (*)Revise 13 diagnostics for rotational symmetry

  Show description for a3e9e1c
  

  Hallberg-NOAA

  authored and

  marshallward

  committed
  a3e9e1c

Commits on May 8, 2024

• +Fix multiple bugs when MEKE_GM_SRC_ALT is True

  Show description for efe1b4a
  

  Hallberg-NOAA

  authored and

  marshallward

  committed
  efe1b4a

• Added missing values for vector u2_bg(:) within set_viscous_ML

  Show description for a200f5f
  

  alex-huth

  authored and

  marshallward

  committed
  a200f5f

• Makedep: Better handling of parentheses

  Show description for 1829b7f
  

  marshallward

  authored and

  adcroft

  committed
  1829b7f

Commits on May 13, 2024

• +(*)Fix USE_QG_LEITH_VISC = True reproducibility

  Show description for 93d9bb8
  

  Hallberg-NOAA

  authored and

  marshallward

  committed
  93d9bb8

• Add diags for east, north velocity components.

  Show description for bb8a653
  

  kshedstrom

  authored and

  marshallward

  committed
  bb8a653

Commits on May 14, 2024

• SAL: Explicitly allocate sht variable in SAL_CS

  Show description for 0c790f2
  marshallward

  committed
  0c790f2

• Merge branch 'main' into dev/gfdl

  marshallward

  committed
  e253883

Commits on May 15, 2024

• Testing: Correct perf parsing of C++ output

  Show description for 6272bbc
  

  marshallward

  authored and

  adcroft

  committed
  6272bbc