Add build status tags which link to ARCCSS jenkins. #97
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adcroft
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Jul 5, 2019
…into dev/master - This is a merge from NCAR onto dev/master for MOM6. - Updates parameter_doc and available_diag files. - No answer changes. - NOAA-GFDL/MOM6@7698afb Merge branch 'gustavo-marques-dev-master-candidate-2019-06-11' into dev/master - NOAA-GFDL/MOM6@5c42192 Removes trailing space - NOAA-GFDL/MOM6@8f96916 Passes optional arg. (BT=CS%barotropic_CSp) in calls to horizontal_viscosity - NOAA-GFDL/MOM6@47886e3 Changes Barotropic to BT in horizontal_viscosity - NOAA-GFDL/MOM6@31dfefd Removes Barotropic and thickness_diffuse from MOM_dynamics_unsplit* - NOAA-GFDL/MOM6@0d1fbff Issue FATAL error if SPLIT=False and USE_GME=True - NOAA-GFDL/MOM6@1a71a55 Remove thickness_diffuse_CS from horizontal_viscosity - NOAA-GFDL/MOM6@2a9d421 Set default AH_VEL_SCALE back to zero - NOAA-GFDL/MOM6@98373e8 Fix hint syntax in MOM_obsolete_param - NOAA-GFDL/MOM6@89168bf move OMP calls below GME and above the K-loop - NOAA-GFDL/MOM6@afb07fb Add MEKE_GEOMETRIC_EPSILON - NOAA-GFDL/MOM6@062e3b0 Obsolete parameter MEKE_VISCOSITY_COEFF - NOAA-GFDL/MOM6@2ada29a Adds MEKE_VISCOSITY_COEFF_AU and MEKE_VISCOSITY_COEFF_KU into the MEKE documentation - NOAA-GFDL/MOM6@31dda12 Merge branch 'dev/master' into dev-master-candidate-2019-06-11 - NOAA-GFDL/MOM6@91d0e26 Merge pull request #103 from gustavo-marques/gme_31May2019 - NOAA-GFDL/MOM6@22b6695 Remove trailing space - NOAA-GFDL/MOM6@a995acf Reverts biharmonic constants to the origial definition - NOAA-GFDL/MOM6@2d2f83f Changes the way of counting the work - NOAA-GFDL/MOM6@25ea4dc Changes in MEKE - NOAA-GFDL/MOM6@f74be3f Deletes code related to GME_Varmix - NOAA-GFDL/MOM6@f52375b Changes logic of an if statement in calc_slope_functions to avoid change in answers - NOAA-GFDL/MOM6@b3c0b69 Fixes unregistered diagnostic id - NOAA-GFDL/MOM6@1388ce7 Removes trailing space - NOAA-GFDL/MOM6@4dd50c1 Fixes additional doxygen syntax - NOAA-GFDL/MOM6@3d997ee Fixes doxygen syntax - NOAA-GFDL/MOM6@35eccc0 Ensures that MEKE%Kh_diff is only used when USE_KH_IN_MEKE = True - NOAA-GFDL/MOM6@3594d53 Merge branch 'merge_GME_17May2019' into geometric_putao - NOAA-GFDL/MOM6@59944eb Added GEOMETRIC as an option for MEKE. Also added biharmonic MEKE viscosity and the option to use a non-MEKE thickness diffusivity to diffuse MEKE. Split MEKE viscosity options into parts concerning Ku and Au. - NOAA-GFDL/MOM6@03386c0 Merge branch 'dev/ncar' into merge_GME - NOAA-GFDL/MOM6@e5a0b82 Merge branch 'GME_10may2019putao' into geometric_putao - NOAA-GFDL/MOM6@e0a8b9b Merge pull request #102 from NCAR/ocn_lag - NOAA-GFDL/MOM6@b2ff365 fix ocean lag logic for restart runs - NOAA-GFDL/MOM6@8797615 Merge pull request #101 from NCAR/ocn_lag - NOAA-GFDL/MOM6@0ae751e apply ocean lag to cesm runs only - NOAA-GFDL/MOM6@eb301fe skip first tstep and double second tstep - NOAA-GFDL/MOM6@b668abf Merge pull request #100 from gustavo-marques/set_fw_bug_to_false - NOAA-GFDL/MOM6@d449d37 Set default of USE_NET_FW_ADJUSTMENT_SIGN_BUG to false in NUOPC cap - NOAA-GFDL/MOM6@eda43c4 Merge branch 'guillermo_putao' into gme_06may2019 - NOAA-GFDL/MOM6@4c15159 Added a "next-to_boundary" mask that should help with fixing abnormally large values of the velocity gradient tensor magnitude next to land. - NOAA-GFDL/MOM6@434ffe7 Working configuration of MEKE/GME. Has biharmonic MEKE viscosity and a GME sink term. - NOAA-GFDL/MOM6@b503858 Merge pull request #99 from gustavo-marques/add_missing_fluxes_nuopc - NOAA-GFDL/MOM6@ef0abe6 Merge branch 'dev/ncar' into gme_03may2019 - NOAA-GFDL/MOM6@434ff08 Willy was silly. - NOAA-GFDL/MOM6@27bc6b3 Merge pull request #98 from NCAR/fix_nuopc_calendar - NOAA-GFDL/MOM6@4b6ef52 Revert "Added biharmonic option for MEKE viscosity." - NOAA-GFDL/MOM6@7671d31 get calendar from CESM - NOAA-GFDL/MOM6@69c21ea Add missing US entries and fix typos introduced during merge - NOAA-GFDL/MOM6@4db5f4d Merge branch 'add_missing_fluxes_nuopc' into gme_03may2019 - NOAA-GFDL/MOM6@4d02387 Add seaice_melt and seaice_melt_heat - NOAA-GFDL/MOM6@a6cd3fe Commented out thickness diffusivity calls for GME, since it is not presently being used. - NOAA-GFDL/MOM6@80c65c7 Added a GME sink term to the MEKE budget. Cleaned up MOM_hor_visc.F90. - NOAA-GFDL/MOM6@6b32174 Added biharmonic option for MEKE viscosity. - NOAA-GFDL/MOM6@73e89ec Cleaned up MOM_hor_visc.F90 a bit, especially parts having to do with calculating FrictWork. - NOAA-GFDL/MOM6@3c91971 Added option to calculate MKE-to-MEKE energy conversion by GME. - NOAA-GFDL/MOM6@f6d1c65 Fixed if statement in MOM_MEKE.F90. Added option to use alternative form of GM PE-to_MEKE energy conversion in MOM_thickness_diffuse. - NOAA-GFDL/MOM6@c24bfb3 Added Jansen et al. (2015) version of MEKE dissipation. Added an alternative way of calculating PE-to_MEKE energy conversion. - NOAA-GFDL/MOM6@3df6ff3 Merge pull request #97 from alperaltuntas/fix_nuopc_use_only - NOAA-GFDL/MOM6@0fcc576 use ESMF operators - NOAA-GFDL/MOM6@36ba339 Merge pull request #96 from gustavo-marques/add_missing_US_arguments_nuopc_cap - NOAA-GFDL/MOM6@ce5571f Add CS%US argument lost during merge conflict - NOAA-GFDL/MOM6@4727f20 Merge branch 'dev-master-candidate-2018-04-22' into add_missing_US_arguments_nuopc_cap - NOAA-GFDL/MOM6@42582a1 Merge pull request #95 from alperaltuntas/fix_debug_mode - NOAA-GFDL/MOM6@03a5586 Merge branch 'dev/ncar' into fix_debug_mode - NOAA-GFDL/MOM6@d8b7825 fix uninitialized oneOrTwo - NOAA-GFDL/MOM6@379e9ee make uppercase DEBUG lowercase - NOAA-GFDL/MOM6@acb4d3f Merge pull request #94 from gustavo-marques/merge-dev-master-candidate-2018-04-22 - NOAA-GFDL/MOM6@d892664 Merge branch 'dev-master-candidate-2018-04-22' into merge-dev-master-candidate-2018-04-22 - NOAA-GFDL/MOM6@5868144 Merge pull request #93 from gustavo-marques/add_nuopc_cap - NOAA-GFDL/MOM6@172ae02 Fixed problems with FrictWorkMax and FrictWorkDiss in MOM_hor_visc.F. More specifically, I moved the calculation of dudx and dvdy outside of the Leith loop so now it is being calculated with sh_xx. - NOAA-GFDL/MOM6@8df6efd Added a new flag to MOM_lateral_mixing_coeffs called "USE_VISBECK", which calculates the GM coefficient using the Visbeck et al. (1997) formulation. Previously this was being done whenever VarMix was enabled, but I wanted to separate VarMix from this diffusivity call. - NOAA-GFDL/MOM6@e5238f5 Merge branch 'dev/ncar' into add_nuopc_cap - NOAA-GFDL/MOM6@6542122 Added new variable FrictWork_diss to account for the energy dissipated by shear production (excluding the energy diffusion term which can be positive). - NOAA-GFDL/MOM6@2260e70 Fixed some coding mistakes from the last commit. - NOAA-GFDL/MOM6@f5da24d Allocated FrictWorkMax array (forgot last time). - NOAA-GFDL/MOM6@59aad4f Added a loop to ensure MEKE is never less than 0. Added new variable called FrictWorkMax that calculates the maximum frictional work that is allowed by theory. - NOAA-GFDL/MOM6@807072b Refactored MOM_hor_visc. Moved GME out of loops where downgradient viscosity is calculated. Moved calculation of FrictWork ahead of GME so I can separate the work done by downgradient stuff from that of GME. - NOAA-GFDL/MOM6@bd98d83 Increased GME limiter and number of times to pass through smoothing function. - NOAA-GFDL/MOM6@fda0334 Fixed QG Leith halo problem on k=nz level. Also added a tapering function to GME that turns it off in shallow water. - NOAA-GFDL/MOM6@24790c2 Added some pass_vector and pass_var calls - NOAA-GFDL/MOM6@a605c59 Added some pass_vector calls - NOAA-GFDL/MOM6@a271bb9 Changed QG Leith limiter to 2D vort. grad. - NOAA-GFDL/MOM6@823d014 Merge branch 'dev/ncar' into GME_21Feb2019 - NOAA-GFDL/MOM6@bed3fbc Change limiter in the GME_coeff to 1.0e4 - NOAA-GFDL/MOM6@25ff7c8 Merge pull request #92 from gustavo-marques/fix_rotation - NOAA-GFDL/MOM6@8f2080a Merge pull request #91 from gustavo-marques/latent_heat_frozen_fluxes - NOAA-GFDL/MOM6@a160252 Change limiter in the GME_coeff to 1.0e5 - NOAA-GFDL/MOM6@dddf151 Merge branch 'latent_heat_frozen_fluxes' into fix_rotation - NOAA-GFDL/MOM6@e502a97 Fix another line length - NOAA-GFDL/MOM6@12d8856 Merge branch 'latent_heat_frozen_fluxes' into fix_rotation - NOAA-GFDL/MOM6@adfd67e Fix line length - NOAA-GFDL/MOM6@2467749 Merge branch 'dev/ncar' into latent_heat_frozen_fluxes - NOAA-GFDL/MOM6@a5fe8c0 Fix rotations in import and export subroutines - NOAA-GFDL/MOM6@72945e4 Comment lines with index_bounds - NOAA-GFDL/MOM6@1241da8 Add new way of calculating latent heat - NOAA-GFDL/MOM6@b97a787 Fixed problem with updating hq -- hq is now a 2D array - NOAA-GFDL/MOM6@5360863 Changed hq to a 2D array - NOAA-GFDL/MOM6@4b35452 Modified initialization of GME variables - NOAA-GFDL/MOM6@38ac453 Fixed several issues for GME - NOAA-GFDL/MOM6@03b01c4 Merge pull request #89 from gustavo-marques/sync_dev_master_19Dec18 - NOAA-GFDL/MOM6@8228b64 Merge pull request #90 from alperaltuntas/fix_oda - NOAA-GFDL/MOM6@cc7f725 apply oda tracer increments only if da is active - NOAA-GFDL/MOM6@de3a52c Deleted KH_t_GME and allocate arrays via safe_alloc_ptr - NOAA-GFDL/MOM6@581b30d Move inv_PI3 outside of k loop - NOAA-GFDL/MOM6@462dfd8 Change condition for applying Ah_Limit + axes for GME diag. - NOAA-GFDL/MOM6@bef613b Add thickness_diffuse_CSp and Barotropic_CSp as arguments - NOAA-GFDL/MOM6@e8a7386 Move thickness_diffuse_init before initialize_dyn_split_RK2 - NOAA-GFDL/MOM6@d3aaa9d Fix calls to find_eta and calc_Visbeck_coeffs - NOAA-GFDL/MOM6@019ee95 Merge branch 'dev/ncar' into ncar_GME_willy_merged - NOAA-GFDL/MOM6@d5f5d32 Adds GME and smoothing function - NOAA-GFDL/MOM6@a38fc07 Add flags for GME and define necessary arrays - NOAA-GFDL/MOM6@ec68e41 Adds infrastructure to enable GME to access private arrays - NOAA-GFDL/MOM6@60d493a Add option to use QG Leith viscosity as the GM coefficient - NOAA-GFDL/MOM6@81a5771 Compute QG Leith GM coefficient and add some diagnostics - NOAA-GFDL/MOM6@c42b6a4 Add grad_vort_mag_h and grad_vort_mag_q - NOAA-GFDL/MOM6@d96a3fe Defined KH arrays in VarMix to be passed to thickness_diffuse. - NOAA-GFDL/MOM6@f913004 Preparing lateral_coeffs and thickness_diffuse for QG Leith calculations. - NOAA-GFDL/MOM6@52667e9 Changed use_QG_Leith to use_QG_Leith_visc. Removed commented lines from calc_QG_Leith_viscosity. - NOAA-GFDL/MOM6@e0baaea Initialized new arrays for Leith, deleted deprecated ones - NOAA-GFDL/MOM6@3b43efe Refactored the entire Leith section. - NOAA-GFDL/MOM6@f4256fb Adding a limiter via planetary number - NOAA-GFDL/MOM6@5c5533b Rename variables to make names consistent; fix dimens. Biharm Smag - NOAA-GFDL/MOM6@b9d69b7 Fix a bug in an if statement - NOAA-GFDL/MOM6@d069e51 Changed constraint on Leith viscosity. - NOAA-GFDL/MOM6@92e2875 Bounds vort_xy_* in Leith. - NOAA-GFDL/MOM6@d02fd47 Adds option to diagnose div_xx_h and vort_xy_q - NOAA-GFDL/MOM6@da862b3 Change calc_Leith_viscosity to calc_QG_Leith_viscosity - NOAA-GFDL/MOM6@84542af QG Leith code refactoring - NOAA-GFDL/MOM6@cda9edd Deletes unneeded code - NOAA-GFDL/MOM6@7746539 Deletes unecessary code and adds Leith_Kh_* - NOAA-GFDL/MOM6@2becf74 Merge branch 'qg-leith' into ncar_qg_leith - NOAA-GFDL/MOM6@69f2c75 Added stretching term for QG Leith viscosity - NOAA-GFDL/MOM6@f08592f Added independent flag for beta-term in Leith - NOAA-GFDL/MOM6@b39edff Cleaned up left over arrays from moving Leith out of MOM_hor_visc.F90 - NOAA-GFDL/MOM6@c546d3d Replaced calc_vert_vort_mag() with calc_Leith_viscosity() - NOAA-GFDL/MOM6@c59f87e Read Leith parameters in MOM_lateral_coeffs.F90 - NOAA-GFDL/MOM6@7dc2510 Added beta to Leith vorticity magnitude - NOAA-GFDL/MOM6@273745c Moved Leith vorticity magnitude calc into MOM_lateral_mixing_coeffs.F90 - NOAA-GFDL/MOM6@e5d4bdf Consolidated Leith related calculations - NOAA-GFDL/MOM6@fd4faf5 Converted local scalar Vort_mag into local 2d array
adcroft
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Jul 5, 2019
- NOAA-GFDL/MOM6@27485ef Merge branch 'dev/master' into dev/gfdl - NOAA-GFDL/MOM6@7698afb Merge branch 'gustavo-marques-dev-master-candidate-2019-06-11' into dev/master - NOAA-GFDL/MOM6@5c42192 Removes trailing space - NOAA-GFDL/MOM6@8f96916 Passes optional arg. (BT=CS%barotropic_CSp) in calls to horizontal_viscosity - NOAA-GFDL/MOM6@47886e3 Changes Barotropic to BT in horizontal_viscosity - NOAA-GFDL/MOM6@31dfefd Removes Barotropic and thickness_diffuse from MOM_dynamics_unsplit* - NOAA-GFDL/MOM6@0d1fbff Issue FATAL error if SPLIT=False and USE_GME=True - NOAA-GFDL/MOM6@1a71a55 Remove thickness_diffuse_CS from horizontal_viscosity - NOAA-GFDL/MOM6@2a9d421 Set default AH_VEL_SCALE back to zero - NOAA-GFDL/MOM6@98373e8 Fix hint syntax in MOM_obsolete_param - NOAA-GFDL/MOM6@89168bf move OMP calls below GME and above the K-loop - NOAA-GFDL/MOM6@afb07fb Add MEKE_GEOMETRIC_EPSILON - NOAA-GFDL/MOM6@062e3b0 Obsolete parameter MEKE_VISCOSITY_COEFF - NOAA-GFDL/MOM6@2ada29a Adds MEKE_VISCOSITY_COEFF_AU and MEKE_VISCOSITY_COEFF_KU into the MEKE documentation - NOAA-GFDL/MOM6@31dda12 Merge branch 'dev/master' into dev-master-candidate-2019-06-11 - NOAA-GFDL/MOM6@91d0e26 Merge pull request #103 from gustavo-marques/gme_31May2019 - NOAA-GFDL/MOM6@22b6695 Remove trailing space - NOAA-GFDL/MOM6@a995acf Reverts biharmonic constants to the origial definition - NOAA-GFDL/MOM6@2d2f83f Changes the way of counting the work - NOAA-GFDL/MOM6@25ea4dc Changes in MEKE - NOAA-GFDL/MOM6@f74be3f Deletes code related to GME_Varmix - NOAA-GFDL/MOM6@f52375b Changes logic of an if statement in calc_slope_functions to avoid change in answers - NOAA-GFDL/MOM6@b3c0b69 Fixes unregistered diagnostic id - NOAA-GFDL/MOM6@1388ce7 Removes trailing space - NOAA-GFDL/MOM6@4dd50c1 Fixes additional doxygen syntax - NOAA-GFDL/MOM6@3d997ee Fixes doxygen syntax - NOAA-GFDL/MOM6@35eccc0 Ensures that MEKE%Kh_diff is only used when USE_KH_IN_MEKE = True - NOAA-GFDL/MOM6@3594d53 Merge branch 'merge_GME_17May2019' into geometric_putao - NOAA-GFDL/MOM6@59944eb Added GEOMETRIC as an option for MEKE. Also added biharmonic MEKE viscosity and the option to use a non-MEKE thickness diffusivity to diffuse MEKE. Split MEKE viscosity options into parts concerning Ku and Au. - NOAA-GFDL/MOM6@03386c0 Merge branch 'dev/ncar' into merge_GME - NOAA-GFDL/MOM6@e5a0b82 Merge branch 'GME_10may2019putao' into geometric_putao - NOAA-GFDL/MOM6@e0a8b9b Merge pull request #102 from NCAR/ocn_lag - NOAA-GFDL/MOM6@b2ff365 fix ocean lag logic for restart runs - NOAA-GFDL/MOM6@8797615 Merge pull request #101 from NCAR/ocn_lag - NOAA-GFDL/MOM6@0ae751e apply ocean lag to cesm runs only - NOAA-GFDL/MOM6@eb301fe skip first tstep and double second tstep - NOAA-GFDL/MOM6@b668abf Merge pull request #100 from gustavo-marques/set_fw_bug_to_false - NOAA-GFDL/MOM6@d449d37 Set default of USE_NET_FW_ADJUSTMENT_SIGN_BUG to false in NUOPC cap - NOAA-GFDL/MOM6@eda43c4 Merge branch 'guillermo_putao' into gme_06may2019 - NOAA-GFDL/MOM6@4c15159 Added a "next-to_boundary" mask that should help with fixing abnormally large values of the velocity gradient tensor magnitude next to land. - NOAA-GFDL/MOM6@434ffe7 Working configuration of MEKE/GME. Has biharmonic MEKE viscosity and a GME sink term. - NOAA-GFDL/MOM6@b503858 Merge pull request #99 from gustavo-marques/add_missing_fluxes_nuopc - NOAA-GFDL/MOM6@ef0abe6 Merge branch 'dev/ncar' into gme_03may2019 - NOAA-GFDL/MOM6@434ff08 Willy was silly. - NOAA-GFDL/MOM6@27bc6b3 Merge pull request #98 from NCAR/fix_nuopc_calendar - NOAA-GFDL/MOM6@4b6ef52 Revert "Added biharmonic option for MEKE viscosity." - NOAA-GFDL/MOM6@7671d31 get calendar from CESM - NOAA-GFDL/MOM6@69c21ea Add missing US entries and fix typos introduced during merge - NOAA-GFDL/MOM6@4db5f4d Merge branch 'add_missing_fluxes_nuopc' into gme_03may2019 - NOAA-GFDL/MOM6@4d02387 Add seaice_melt and seaice_melt_heat - NOAA-GFDL/MOM6@a6cd3fe Commented out thickness diffusivity calls for GME, since it is not presently being used. - NOAA-GFDL/MOM6@80c65c7 Added a GME sink term to the MEKE budget. Cleaned up MOM_hor_visc.F90. - NOAA-GFDL/MOM6@6b32174 Added biharmonic option for MEKE viscosity. - NOAA-GFDL/MOM6@73e89ec Cleaned up MOM_hor_visc.F90 a bit, especially parts having to do with calculating FrictWork. - NOAA-GFDL/MOM6@3c91971 Added option to calculate MKE-to-MEKE energy conversion by GME. - NOAA-GFDL/MOM6@f6d1c65 Fixed if statement in MOM_MEKE.F90. Added option to use alternative form of GM PE-to_MEKE energy conversion in MOM_thickness_diffuse. - NOAA-GFDL/MOM6@c24bfb3 Added Jansen et al. (2015) version of MEKE dissipation. Added an alternative way of calculating PE-to_MEKE energy conversion. - NOAA-GFDL/MOM6@3df6ff3 Merge pull request #97 from alperaltuntas/fix_nuopc_use_only - NOAA-GFDL/MOM6@0fcc576 use ESMF operators - NOAA-GFDL/MOM6@36ba339 Merge pull request #96 from gustavo-marques/add_missing_US_arguments_nuopc_cap - NOAA-GFDL/MOM6@ce5571f Add CS%US argument lost during merge conflict - NOAA-GFDL/MOM6@4727f20 Merge branch 'dev-master-candidate-2018-04-22' into add_missing_US_arguments_nuopc_cap - NOAA-GFDL/MOM6@42582a1 Merge pull request #95 from alperaltuntas/fix_debug_mode - NOAA-GFDL/MOM6@03a5586 Merge branch 'dev/ncar' into fix_debug_mode - NOAA-GFDL/MOM6@d8b7825 fix uninitialized oneOrTwo - NOAA-GFDL/MOM6@379e9ee make uppercase DEBUG lowercase - NOAA-GFDL/MOM6@acb4d3f Merge pull request #94 from gustavo-marques/merge-dev-master-candidate-2018-04-22 - NOAA-GFDL/MOM6@d892664 Merge branch 'dev-master-candidate-2018-04-22' into merge-dev-master-candidate-2018-04-22 - NOAA-GFDL/MOM6@5868144 Merge pull request #93 from gustavo-marques/add_nuopc_cap - NOAA-GFDL/MOM6@172ae02 Fixed problems with FrictWorkMax and FrictWorkDiss in MOM_hor_visc.F. More specifically, I moved the calculation of dudx and dvdy outside of the Leith loop so now it is being calculated with sh_xx. - NOAA-GFDL/MOM6@8df6efd Added a new flag to MOM_lateral_mixing_coeffs called "USE_VISBECK", which calculates the GM coefficient using the Visbeck et al. (1997) formulation. Previously this was being done whenever VarMix was enabled, but I wanted to separate VarMix from this diffusivity call. - NOAA-GFDL/MOM6@e5238f5 Merge branch 'dev/ncar' into add_nuopc_cap - NOAA-GFDL/MOM6@6542122 Added new variable FrictWork_diss to account for the energy dissipated by shear production (excluding the energy diffusion term which can be positive). - NOAA-GFDL/MOM6@2260e70 Fixed some coding mistakes from the last commit. - NOAA-GFDL/MOM6@f5da24d Allocated FrictWorkMax array (forgot last time). - NOAA-GFDL/MOM6@59aad4f Added a loop to ensure MEKE is never less than 0. Added new variable called FrictWorkMax that calculates the maximum frictional work that is allowed by theory. - NOAA-GFDL/MOM6@807072b Refactored MOM_hor_visc. Moved GME out of loops where downgradient viscosity is calculated. Moved calculation of FrictWork ahead of GME so I can separate the work done by downgradient stuff from that of GME. - NOAA-GFDL/MOM6@bd98d83 Increased GME limiter and number of times to pass through smoothing function. - NOAA-GFDL/MOM6@fda0334 Fixed QG Leith halo problem on k=nz level. Also added a tapering function to GME that turns it off in shallow water. - NOAA-GFDL/MOM6@24790c2 Added some pass_vector and pass_var calls - NOAA-GFDL/MOM6@a605c59 Added some pass_vector calls - NOAA-GFDL/MOM6@a271bb9 Changed QG Leith limiter to 2D vort. grad. - NOAA-GFDL/MOM6@823d014 Merge branch 'dev/ncar' into GME_21Feb2019 - NOAA-GFDL/MOM6@bed3fbc Change limiter in the GME_coeff to 1.0e4 - NOAA-GFDL/MOM6@25ff7c8 Merge pull request #92 from gustavo-marques/fix_rotation - NOAA-GFDL/MOM6@8f2080a Merge pull request #91 from gustavo-marques/latent_heat_frozen_fluxes - NOAA-GFDL/MOM6@a160252 Change limiter in the GME_coeff to 1.0e5 - NOAA-GFDL/MOM6@dddf151 Merge branch 'latent_heat_frozen_fluxes' into fix_rotation - NOAA-GFDL/MOM6@e502a97 Fix another line length - NOAA-GFDL/MOM6@12d8856 Merge branch 'latent_heat_frozen_fluxes' into fix_rotation - NOAA-GFDL/MOM6@adfd67e Fix line length - NOAA-GFDL/MOM6@2467749 Merge branch 'dev/ncar' into latent_heat_frozen_fluxes - NOAA-GFDL/MOM6@a5fe8c0 Fix rotations in import and export subroutines - NOAA-GFDL/MOM6@72945e4 Comment lines with index_bounds - NOAA-GFDL/MOM6@1241da8 Add new way of calculating latent heat - NOAA-GFDL/MOM6@b97a787 Fixed problem with updating hq -- hq is now a 2D array - NOAA-GFDL/MOM6@5360863 Changed hq to a 2D array - NOAA-GFDL/MOM6@4b35452 Modified initialization of GME variables - NOAA-GFDL/MOM6@38ac453 Fixed several issues for GME - NOAA-GFDL/MOM6@03b01c4 Merge pull request #89 from gustavo-marques/sync_dev_master_19Dec18 - NOAA-GFDL/MOM6@8228b64 Merge pull request #90 from alperaltuntas/fix_oda - NOAA-GFDL/MOM6@cc7f725 apply oda tracer increments only if da is active - NOAA-GFDL/MOM6@de3a52c Deleted KH_t_GME and allocate arrays via safe_alloc_ptr - NOAA-GFDL/MOM6@581b30d Move inv_PI3 outside of k loop - NOAA-GFDL/MOM6@462dfd8 Change condition for applying Ah_Limit + axes for GME diag. - NOAA-GFDL/MOM6@bef613b Add thickness_diffuse_CSp and Barotropic_CSp as arguments - NOAA-GFDL/MOM6@e8a7386 Move thickness_diffuse_init before initialize_dyn_split_RK2 - NOAA-GFDL/MOM6@d3aaa9d Fix calls to find_eta and calc_Visbeck_coeffs - NOAA-GFDL/MOM6@019ee95 Merge branch 'dev/ncar' into ncar_GME_willy_merged - NOAA-GFDL/MOM6@d5f5d32 Adds GME and smoothing function - NOAA-GFDL/MOM6@a38fc07 Add flags for GME and define necessary arrays - NOAA-GFDL/MOM6@ec68e41 Adds infrastructure to enable GME to access private arrays - NOAA-GFDL/MOM6@60d493a Add option to use QG Leith viscosity as the GM coefficient - NOAA-GFDL/MOM6@81a5771 Compute QG Leith GM coefficient and add some diagnostics - NOAA-GFDL/MOM6@c42b6a4 Add grad_vort_mag_h and grad_vort_mag_q - NOAA-GFDL/MOM6@d96a3fe Defined KH arrays in VarMix to be passed to thickness_diffuse. - NOAA-GFDL/MOM6@f913004 Preparing lateral_coeffs and thickness_diffuse for QG Leith calculations. - NOAA-GFDL/MOM6@52667e9 Changed use_QG_Leith to use_QG_Leith_visc. Removed commented lines from calc_QG_Leith_viscosity. - NOAA-GFDL/MOM6@e0baaea Initialized new arrays for Leith, deleted deprecated ones - NOAA-GFDL/MOM6@3b43efe Refactored the entire Leith section. - NOAA-GFDL/MOM6@f4256fb Adding a limiter via planetary number - NOAA-GFDL/MOM6@5c5533b Rename variables to make names consistent; fix dimens. Biharm Smag - NOAA-GFDL/MOM6@b9d69b7 Fix a bug in an if statement - NOAA-GFDL/MOM6@d069e51 Changed constraint on Leith viscosity. - NOAA-GFDL/MOM6@92e2875 Bounds vort_xy_* in Leith. - NOAA-GFDL/MOM6@d02fd47 Adds option to diagnose div_xx_h and vort_xy_q - NOAA-GFDL/MOM6@da862b3 Change calc_Leith_viscosity to calc_QG_Leith_viscosity - NOAA-GFDL/MOM6@84542af QG Leith code refactoring - NOAA-GFDL/MOM6@cda9edd Deletes unneeded code - NOAA-GFDL/MOM6@7746539 Deletes unecessary code and adds Leith_Kh_* - NOAA-GFDL/MOM6@2becf74 Merge branch 'qg-leith' into ncar_qg_leith - NOAA-GFDL/MOM6@69f2c75 Added stretching term for QG Leith viscosity - NOAA-GFDL/MOM6@f08592f Added independent flag for beta-term in Leith - NOAA-GFDL/MOM6@b39edff Cleaned up left over arrays from moving Leith out of MOM_hor_visc.F90 - NOAA-GFDL/MOM6@c546d3d Replaced calc_vert_vort_mag() with calc_Leith_viscosity() - NOAA-GFDL/MOM6@c59f87e Read Leith parameters in MOM_lateral_coeffs.F90 - NOAA-GFDL/MOM6@7dc2510 Added beta to Leith vorticity magnitude - NOAA-GFDL/MOM6@273745c Moved Leith vorticity magnitude calc into MOM_lateral_mixing_coeffs.F90 - NOAA-GFDL/MOM6@e5d4bdf Consolidated Leith related calculations - NOAA-GFDL/MOM6@fd4faf5 Converted local scalar Vort_mag into local 2d array
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