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This project is mirrored from https://github.com/NOAA-GFDL/MOM6-examples.git. Pull mirroring updated .
  • dev/master/2016.12.16
    dev/master/2016.12.16
    
    - Fixed diagnostics yet again
    - OM4 answer changes due to new (better) defaults in SIS2
    
    034145c MOM6: Moved mass transport diagnostics to right point in algorithm
    6fdc00e OM4: Use _z diagnostic for sections
    fdd126a SIS2: *Refactored PPM tracer advection for robustness
    a1eb451 Updated MOM_parameter_doc files for old tests
    d68f5cb Fixed SIS_override for coupled_AM2_LM3_SIS2/AM2_SIS2_MOM6i_1deg
    1e626d0 SIS2: +Prepend component name to AVAILABLE_DIAGS_FILE
    8e392f8 SIS2: Set FATAL_UNUSED_PARAMS=True
    6de1f1c SIS2: +Obsoleted ADVECT_TSURF
    927f60c SIS2: Eliminated ADVECT_TSURF from SIS_input files
    fcc5c90 SIS2: *Set CP_BRINE = CP_SEAWATER by default
    666117f SIS2: +*Combined CP_WATER and CP_SEAWATER
    9c63cb5 SIS2: Set CP_ICE, CP_SEAWATER & CP_BRINE in SIS_input
    3ffdff9 SIS2: *Recalculate mca_ice after adjust_ice_categories
    faf686d SIS2: *+Changed the defaults for EULERIAN_TSURF, etc.
    c936f98 SIS2: Set ADVECT_TSURF=False
  • dev/master/2016.12.13
    dev/master/2016.12.13
    
    - Fixed vmo diagnostics (inside 9b5691f)
    - Changed OM4 answers in fcc4e6c, dca4e7c, 930c9cb.
    
    66a5f99 Updated SIS2 available diags
    930c9cb SIS2: *Set EULERIAN_TSURF=True
    dca4e7c SIS2: *Set RECATEGORIZE_ICE=True
    22c077f SIS2: Explicitly set EULERIAN_TSURF & RECATEGORIZE_ICE
    7fac3dc SIS2: +Added the runtime parameter EULERIAN_TSURF
    525d0e8 SIS2: +Added the runtime parameter RECATEGORIZE_ICE
    fcc4e6c *OM4: Set VSTAR_SCALE_FACTOR=1
    9b5691f MOM6: Changed default IO_LAYOUT from 0,0 to 1,1
  • dev/master/2016.12.11
    dev/master/2016.12.11
    
    - Updated baseline OM4 configuration:
      - use ePBL "n" settings
      - OM4_025 uses same hybrid coordinate bounds as OM4_05
      - SIS2 fixes change OM4 answers
    - Primary diagnostics use the new general-coordinate diagnostics
    
    7d01ed5 MOM6: Stop boundary extrapolation in wave_speed remapping
    f0693b3 Merge branch 'nicjhan-328-diagnostic-testing' into dev/master
    6ded29f Merge branch '328-diagnostic-testing' of https://github.com/nicjhan/MOM6-examples into nicjhan-328-diagnostic-testing
    a9dc32e Corrected DIAG_COORD_DEF_Z in Baltic test
    9039c8f Updated SIS2 and icebergs sub-modules
    0d7b368 OM4: Added transport and MLE diagnostics
    871d438 MOM6: Updated cell_methods for vhml and vhGM
    6b54d72 *OM4 updated to use ePBLn settings
    a46e5e5 Merge branch 'dev/master' of github.com:NOAA-GFDL/MOM6-examples into dev/master
    061932c Merge branch 'dev/master' of github.com:NOAA-GFDL/MOM6-examples into dev/master
    12eb835 Merge pull request #115 from NOAA-GFDL/user/jpk/aja_dora_underscore_z
    fa59484 SIS2: *Reset t_surf to T_freeze ocean when part_size==0
    1965c9e "webversion" option argument added back in
    4cdf013 *OM4_025 updated coordinate bounds to match OM4_05
    d67a48d Merge branch 'dev/master' into diagnostic-regridding
    570c16f SIS2: Updated layout files for SIS2
    f892f94 Merge branch 'dev/master' into diagnostic-regridding
    6dcf7cf MOM6: Finalizing merge of nicjhan-334-rho-sigma-diagnostic-regridding
    19aa406 Update MOM6 with @aja additions. #328
    94d8205 Python3 fixes. #328
    4972110 SIS2: Made VERONA_COUPLER a layout param
    70aed9d SIS2: +Call data_override_unset_domain in get_sea_surface
    af6cb4d MOM6: Moved umo,vmo to MOM.F90 and based on uhtr,vhtr
    1b79978 Merge branch 'dev/master' into diagnostic-regridding
    f4b9657 Merge branch 'dev/master' of github.com:NOAA-GFDL/MOM6-examples into dev/master
    6d3bab8 SIS2: *Added halo updates for IST%t_surf
    3dbb68c MOC plotting scripts uses vmo first before vh
    0ae02de Updated Baltic_ALE_z_offline_tracers/SIS_input to recover answers
    0c29727 FMS: +Updated FMS to origin/user/z1l/data_override
    0cbd055 SIS2: *+Set the default for ADVECT_TSURF to True
    255106b SIS2: *Set ADVECT_TSURF in SIS_input files
    8744d3c +Added ADVECT_TSURF run time option
    7006c85 Add get_z() to m6toolbox.py to handle new _z diagnostics
    5e2d6ca Merge branch 'dev/master' into diagnostic-regridding
    2fe5535 Synced submodules MOM6, SIS2 and icebergs
    94aca6e MOM6: Handled multiple pull requests
    4b5c906 MOM6: Merge branch 'ESMG-user/ksh/open_bc' into dev/master
    83415bc MOM6: Moved to flat (no subdirs) mode for doxygen
    e4a54da SIS2: +Added slow_Domain_NH to ice_data_type
    b838b7f Merge branch 'dev/master' into diagnostic-regridding
    f260f57 Use new format to specify Z coordinate locations for diagnostic regridding. #328
    f4edf7b Update test scripts to support Python3, update MOM. #328
    9a7c873 MOM6: Added _xyave to all remapped diagnostics
    e10184a MOM6: Fix conflict with dimension names in diag_manager
    66d6aeb MOM6: Changed default DIAG_COORD_Z grid to be WOA09 for deep configurations
    2bf75a8 MOM6: Moved reading of regridding parameters into MOM_regridding.F90
    f44755c MOM6: Hide interp_scheme when not needed, pt 2
    379fb48 MOM6: Added arbitrary number of diagnostic coordinates, NUM_DIAG_COORDS
    30e2680 Adding a few mask tables for 1/4 degree grid
    16b4635 SIS2: +Merge branch 'MichaelWinton-user/mw/cmip6_diagnostics' into dev/master
    d488a94 MOM6: Using the new remapped diagnostics branch
    7460103 SIS2: *Corrected the visible albedo transpose bug
    94910d2 The dump diags tool should delete any diags that will be recreated. #328
    c7cecd9 Merge and fix conflict. #328
    64e809c Don't delete old diags when testing, these may be needed for manual inspection. #328
    4ac2a56 Increase max number of diag files. #328
    800027b Extend testing to handle dumping rho and sigma remapped diagnostics as well as z. #328
    6110b55 Update MOM6 with new vertical remapping changes. #328
    1032171 Add link to diagnostic testing from the README. #328
    a035f79 Diag testing: ensure that experiment has run before processing available diags. #328
    90a8357 Update MOM6 version. #328
    62e9e88 Clean up diagnostic tests so they require fewer models runs to finish. #328
    68a3657 Update MOM6 submodule with vertical remapping changes. #328
    65ac3b1 Update tests for diags vertically remapped to z star coordinates. #328
    665a43f Correct specification of z grid used for vertical remapping. #328
    c1bf67d Update diagnostic testing to handle multiple platforms. #328
    7361b91 Missing define from build script used for testing. #328
    b5f1655 Keep build output on failed build during testing. #328
    87ccc87 Test diagnostic data, rather than entire file. #328
    8f0a259 Make experiment.py work with Python 3. #328
    bc917d7 Default to GNU DEBUG builds for diagnostics testing. #328
    0852ad2 Missing define from build script used for testing. #328
    f96bd92 Keep build output on failed build during testing. #328
    f654337 Be able to build models before testing begins. #328
    4bb826c By default use mpirun for runs when doing diagnostics tests. #328
    87fdccd Added missed file, SIS_parameter_doc.layout
    67e4ee0 SIS2: +Modified SIS2 fast ice MOM_domains_init call
    b434543 Added missed SIS_parameter_doc.all
  • dev/master/2016.11.10
    dev/master/2016.11.10
    
    - Adds vertical structure to KHTH
    - Fixes iceberg "pole problem"
    - Includes prototype Langmuir driven mixing
    - No configurations changes.
    
    ccb2e99 MOM6: Added equivalent barotropic vertical structure to KHTH
    a1a2fa8 MOM6: Added diagnostic of equiv. barotropic wave speed/structure
    a42dc92 SIS2: +Added Verona_coupler argument to ice_model_init
    aef4b18 MOM6: Removed MOM_wave_speed dependence on file-parser
    2d6f00b icebergs: Obsoleted parameter read_old_restarts
    f5e9782 *icebergs: Revert previous logic update for polar cells
    13dae1b Added missed SIS_parameter_doc file
    0d4f2ab SIS2: +Added VERONA_COUPLER runtime argument
    f4ffce7 *Corrected bad commit with icebergs
    2fa5a51 *Modified ice_ocean_SIS2/SIS2_bergs_cgrid to better test icebergs
    96e676c Last commits missed SIS_parameter_doc in one experiment
    1e833d2 SIS2: +Grouped fast and slow module initializations
    e4b1314 SIS2: +Grouped fast and slow restart registrations
    a49fecf Added SIS_fast.available_diags to .gitignore
    d44e9a8 Merge branch 'dev/master' of github.com:NOAA-GFDL/MOM6-examples into dev/master
    7efe2af MOM6: Merge branch 'ashao-add_bir_tracer' into dev/master
    89de111 Merge branch 'dev/master' of github.com:CommerceGov/NOAA-GFDL-MOM6-examples into dev/master
    c08859f MOM6: Merge branch 'nicjhan-381-forcing-diag-registration-sequence' into dev/master
    7f3ce0f SIS2: +Revised the albedo and shortwave diagnostics
    809b0f9 Merge branch 'dev/master' of github.com:NOAA-GFDL/MOM6-examples into dev/master
    e85ffc1 MOM6: Merge branch 'gustavo-marques-ale/ice_shelf' into dev/master
    b268ac7 *Set ICEBERG_WINDSTRESS_BUG=True in 2 SIS_input files
    edfa7ca icebergs: 497382717f0e6c6da5ccfa127debf0fa45f7dcc5
    902b52c Added missed SIS_parameter_doc.all files
    9e10225 SIS2: *Changed to ICEBERG_WINDSTRESS_BUG=False by default
    a33c615 SIS2: +Added the runtime option ICEBERG_WINDSTRESS_BUG
    47966ed SIS2: *Correctly rescale wind-stresses for changing ice
    59bbf21 SIS2: +Moved SIS_hor_grid_type to Ice%fCS and Ice%sCS
    d55362a Merge branch 'dev/master' of github.com:CommerceGov/NOAA-GFDL-MOM6-examples into dev/master
    9296d1a MOM6: Merge branch 'breichl-user/bgr/EPBL_LT_function' into dev/master
  • dev/master/2016.10.25
    dev/master/2016.10.25
    
    - Fixes analysis workflow (hopefully because untested!)
    - Provides new options in ePBL
    - Fixes restart issues with ePBL MLD_USE_ITERATION
    - Fix for iceberg v_ice interpolation
    
    32d8fe3 MOM6: Merge branch 'breichl-user/bgr/EPBL_dissipation' into dev/master
    361fef2 Merge pull request #112 from NOAA-GFDL/user/jpk/dora-web-updates
    2235ec7 Merge branch 'ashao-Baltic_ALE_z' into dev/master
    34ee0f2 Updated parameter_doc/added stats for Baltic_ALE_z_offline_tracers
    86db383 Replaced binary files with symbolic links to existing files
    8daf84a Merge branch 'Baltic_ALE_z' of https://github.com/ashao/MOM6-examples into ashao-Baltic_ALE_z
    711fec7 MOM6: Merge branch 'breichl-user/bgr/EPBL_MLD_GUESS' into dev/master
    2036991 MOM6: Merge branch 'ashao-origin/offline_tracers' into dev/master
    bd8bcf6 Updated MOM_override with OFFLINE_TRACER_MODE replacing DO_ONLINE as per @adcroft PR and suggestions. Also, added data_table which was not added in previous commit and updated which offline diagnostics are written out"
    fddd5fb Fix for cmocean module import
    163962f SIS2: +Added run time parameter SINGLE_ICE_STATE_TYPE
    1603144 Merge branch 'dev/master' of github.com:CommerceGov/NOAA-GFDL-MOM6-examples into dev/master
    bb981f9 FMS: Updated submodule to placeholder for verona patch
    a418a73 SIS2: +Added FAST_ICE_RESTARTFILE and split restart files
    8eb1ebb Merge branch 'dev/master' of github.com:NOAA-GFDL/MOM6-examples into dev/master
    babd1fb SIS2: +Added ice_diags_fast_init
    51d13a7 *icebergs: Bug fix: Interpolated ice velocity used ocean velocity
  • dev/master/2016.10.14
    dev/master/2016.10.14
    
    - Potentially more stable ePBL iteration of boundary layer depth
    
    d584dce SIS2: +Moved registration of SIS2 state diagnostics
    04f9c14 SIS2: +Removed ice_thm_CSp from the ice_state_type
    58ef4e7 SIS2: +Created ice_thermo_init and ice_thermo_end
    3d953f6 SIS2: +Created SIS_optics.F90
    cdd0252 Fix for Jenkins "fast run"
    d64263b SIS2: +Only save iceberg diagnostics if icebergs are used
    297cbd8 SIS2: Merge branch 'sternalon-iceberg_run_call_only' into dev/master
    4c13468 SIS2: +Renamed SIS_slow.F90 to SIS_dyn_trans.F90
    b216c3d MOM6: Merge branch 'sternalon-passing_ustar_through_coupler_from_dev_master' into dev/master
    46051fe +Added the prototype melt pond code into SIS2
    6697885 MOM6: +Added run-time parameters for MOM_energetic_PBL
  • dev/master/2016.09.23
    dev/master/2016.09.23
    
    - Possibly significant bugfix for MEKE in eada7c0
    
    eada7c0 *MOM6: Merge branch 'sinakhani-user/skhani/meke_work_bugfix' into dev/master
    f5b43b0 Switched submodule URLs to use https
  • dev/master/2016.09.22a
    dev/master/2016.09.22a
    
    - e83a409 MOM6: Added back in abiotic mods
      - Fixes compilation compatibility with ocean_shared.
  • dev/master/2016.09.22
    dev/master/2016.09.22
    
    - 1da6fc5 includes NOAA-GFDL/MOM6@c3b810c which fixes the _z diagnostics
      that were briefly broken in dev/master/2016.09.18
    - No answer changes.
    
    Commits for MOM6-examples:
    57a4a4c MOM6: Fixed openMP directives
    479dfc5 MOM6: Merge branch 'ESMG-user/ksh/open_bc' into dev/master
    b17cd34 eOM6: Merge branch 'breichl-user/bgr/SCM_updt' into dev/master
    1da6fc5 MOM6: Merge branch 'ashao-vertical_tracer_fix' into dev/master
    83270d0 Changed to PEN_SW_NBANDS=1 in CVmix_SCM_tests
  • dev/master/2016.09.18
    dev/master/2016.09.18
    
    - 40d1fba Includes "USE_MLD_ITERATION" for ePBL.
    - Answer changes for OBCs only.
    
    3dcdc6b *MOM6: Set u-point areas for specified boundary conditions
    048d74a Merge branch 'dev/master' of github.com:NOAA-GFDL/MOM6-examples into dev/master
    4640266 *MOM6: Set normal gradient of KE to zero on open boundaries
    c233c8a Revert "Custom tag of dev/master for generic_abiotic testing"
    b6965d9 Custom tag of dev/master for generic_abiotic testing
    0d9b27e MOM6: Simplified OBC%apply_OBC_*_Flather flags
    14553ce MOM6: Moved obsoletion of APPLY_OBC_* flags to MOM_obsolete_params.F90
    0ec325c MOM6: Merge branch 'ESMG-user/ksh/open_bc' into dev/master
    15d7971 *MOM6: Altered initial conditions for circle_obcs
    03d877f Corrected URL for MOM6 repository policies
    40d1fba MOM6: Merge branch 'breichl-user/bgr/EPBL_MLD_iteration' into dev/master
    2a77170 Merge pull request #109 from NOAA-GFDL/user/jpk/dora-web-updates
    a15f833 Removed print statement used in testing
    5366943 Added clim options for TS_drift.py
    aaf7ab1 Merge pull request #108 from nicjhan/97-jenkins-build-status
    45cca09 Add Jenkins 'fast run' tests to README testing status.
    2bb2f84 MOM6: Merge branch 'breichl-user/bgr/LMD94' into dev/master
    b1fda6d SIS2: Merge branch 'user/nnz/fix_restart_issue42' into dev/master
    00b9226 MOM6: Merge branch 'gustavo-marques-MOM_F90_FIX' into dev/master
    0ec2697 MOM6: Moved call to write_static_fields()
    324e8c7 Merge pull request #106 from NOAA-GFDL/user/jpk/dora-web-updates
  • user/jpk/2016.09.16
  • dev/master/2016.08.23
    dev/master/2016.08.23
    
    - Updated icebergs for testing rolling scheme in OM4
    
    ddc8006 icebergs: Updated to "Wrapped running-mean of calving in logical if-block"
    ca132e9 MOM6: Added optional argument "conversion" to regiseter_diag_field()
    1d09772 Updated availa_diags for "Fix MLV_restrat_time axes, mask shape."
    4a427a0 Move ICE_STATS_INTERVAL to dyn_trans_CS
    3e6670d SIS2: *Use coszen to set the initial ocean albedos
    95c4990 SIS2: *Changed the default for CONSTANT_COSZEN_IC to -1.
    f716f0b *Set CONSTANT_COSZEN_IC to proper values
    72f0868 SIS2: +Add run-time parameters to initialize coszen
    f79c15b SIS2: +Renamed IST%coszen to IST%coszen_nextrad
    66b7c5b SIS2: *Provide ocean SST to atmosphere on first step
    da510bd Updated little-used MOM_parameter_doc files
    4b11441 SIS2: +Restored SW_DIR and SW_DIF diagnostics
    6c41d97 SIS2: +Added control structures to slow_thermo calls.
    2631caa SIS2: +Added control structures to dyn_trans calls.
    d232a23 SIS2: +Added control structures to fast_thermo calls.
    9430182 Merge pull request #103 from adcroft/user/aja/py3_m6toolbox
    d76f7a6 SIS2: +Obsoleted AREA_WEIGHTED_STRESSES
    936cb13 Merge branch 'suyashbire1-user/ssb/buoy_forced_basin' into dev/master
    2f6fb91 Restored MOM6 URL and removed unneeded/empty files
    80cc9ba Merge branch 'dev/master' into user/ssb/buoy_forced_basin
    724ee67 Merge branch 'dev/master' of github.com:NOAA-GFDL/MOM6-examples into dev/master
    1bc4a04 MOM6: Merge branch 'suyashbire1-user/ssb/buoy_forced_basin' into dev/master
    a33c659 MOM6: Merge branch 'user/mjh/FlxAdj_SST_restore' into dev/master
    626e6a4 Merge branch 'dev/master' into user/ssb/buoy_forced_basin
    fd049d6 Merge branch 'dev/master' of github.com:NOAA-GFDL/MOM6-examples into dev/master
    d8edeaf Enabled fatal for NOSLIP with BIHARM
    848954c Disabled fatal for NOSLIP and BIHARMONIC
    07b71d7 SIS2: +Preparation to divide ice_state_type.
    5bf3989 Merge branch 'dev/master' into user/ssb/buoy_forced_basin
    6d28b25 Merge branch 'dev/master' of github.com:NOAA-GFDL/MOM6-examples into dev/master
    f8e8af9 Enabled Fatal for NOSLIP with BIHARMONIC
    4cf7bb0 Removed NOSLIP from MOM_input
    d98b195 Modifications to buoy-forced basin case
    5056ab2 MOM_param, CPU_stats, ocean.stats files added for buoy_forced_basin
    3979873 Converted m6toolbox.py to python3
    1bc69f8 Analysis: Added $(OPTOUTS) to analysis testing script
    b8ca13a Merge branch 'dev/master' into buoy_forced_basin
    cc8fbe5 Merge branch 'dev/master' of github.com:NOAA-GFDL/MOM6-examples into dev/master
    26a525d SIS1_5L_THERMODYNAMICS = False in SIS2 test case (2)
    40696f6 Merge pull request #102 from NOAA-GFDL/nikizadehgfdl-patch-4
    06272ed correction to handle a none-None type
    d5be8d2 Disabled MOM_fatal for NOSLIP and BIHARMONIC
    7cf195e Added MOM_override file in buoy_forced_basin
    16f5abf Modification to MOM_input of buoy_forced_basin
    4b6bc50 Configuration files for buoy_forced_basin
    8f03297 Modified initialization and forcing scripts for buoy_forced_gyre
    4b892be Introduced buoy_forced_basin case to surface forcing and initialization files in MOM6.
    97a0988 Addition of buoy_forced_basin to MOM6 code
    277f4d6 Merging upstream MOM6, SIS2 and mkmf with dev/master
    7087341 Merge branch 'dev/master' of github.com:NOAA-GFDL/MOM6-examples into dev/master
    e672344 SIS2: +Obsoleted SIS1_5L_THERMODYNAMICS
    e95589e SIS1_5L_THERMODYNAMICS = False in SIS2 test case
    5395e26 SIS2: +Obsoleted INTERSPERSED_ICE_THERMO
    f028992 Set INTERSPERSED_ICE_THERMO = False in SIS2 tests
    b80ea0b SIS2: +SIS restart registration rearrangement
    6e26ab7 MOM6: *Change the default for VSTAR_SCALE_FACTOR to 1.0
    bb1b78f Explicitly set VSTAR_SCALE_FACTOR
    2e77bc8 MOM6: +Switched VSTAR_SCALE_COEF to VSTAR_SCALE_FACTOR
    576d372 MOM6: *Refactored ePBL vstar calculation.
    c6488d6 MOM6: +Add BML_USTAR_MIN as a runtime parameter
    9a9293e Merging with upstream
    e5e2bf5 Merge pull request #101 from nicjhan/100-datasets-link
    2f46eea Add missing link from MESO_025_23L INPUT to top level .datasets. Closes #100.
    46320a1 SIS2: +Added WRITE_GEOM option for SIS2.
    b840761 SIS2: +Removed SIS_grid_initalize.F90
    33a2bc9 SIS2 logs INPUTDIR from SIS_initialize_fixed
    c8f2e39 SIS2: +Use a dyn_grid_type in SIS_initialize_fixed
    d21ec7d Tidy up: removed a ./ from a WOA05 link
    23a6d90 Updated datasets links in coupled_AM2_LM3_SIS2 tests
    685f73c SIS2: +Use a dyn_grid_type in SIS_set_grid_metrics
    992bdf8 MOM6: Added workaround for vanished layers in KPP
    1d85a6a SIS2: +Use MOM_checksums for chksums in SIS2
    e2feddb SIS2: Moved call to read G_EARTH into ice_model_init
    89544b9 SIS2: +Move domain init call into ice_model_init
    e00cc6f MOM6: Merge branch 'ESMG-user/ksh/open_bc' into dev/master
    3b48852 SIS2: +Move domain init call into ice_model_init
    5360749 MOM6: +Initialize ocean_grid from dyn_horgrid
    28bef97 MOM6: +Initialize ocean_grid from dyn_horgrid
    d5f4639 Added missed MOM_parameter_doc (again)
    e06b89d Merge branch 'dev/master' of github.com:CommerceGov/NOAA-GFDL-MOM6-examples into dev/master
    7c49c12 MOM6: Merge branch 'dev/master' of github.com:NOAA-GFDL/MOM6 into dev/master
    5cc786e MOM6: Merge branch 'nicjhan-328-dump-all-baltic-diags' into dev/master
    6f14293 Merge branch 'dev/master' of github.com:CommerceGov/NOAA-GFDL-MOM6-examples into dev/master
    986f4e2 MOM6: +Use GV%g_Earth in place of G%g_Earth
    36314fa MOM6: Reordered domain and grid inits & parameter reads
    4b4518b Added missed MOM_parameter_doc
  • dev/master/2016.06.29
    dev/master/2016.06.29
    
    - Added alternative way to combine Jackson et al. and ePBL (9332e54)
    - Alternative way to bound inverse of rotation in ePBL (978c3d9)
    
    9e8b769 MKMF: Added -l option for link flags
    6737f18 FMS: MOved FMS and coupler forward to verona
    01a3164 MOM6: +Added blank desc variables to log_version calls
    9332e54 MOM6: New runtime parameter EPBL_IS_ADDITIVE
    978c3d9 MOM6: +Replaced ML_USE_OMEGA with ML_OMEGA_FRAC
    2e7274c Updated static_input.nml files to mirror input.nml
    dcea95f New checksums for OM4_025 preprocessing
    74bb4d1 MOM6: Merge branch 'gustavo-marques-ISOMIP_tracers' into dev/master
    78398c5 icebergs: Merge branch 'wfcooke-user/wfc/iceberg_fix' into dev/master
    226556c Missed a MOM_parameter_doc.all in previous commit
    ed6e601 MOM6: Merge branch 'dev/master' of github.com:NOAA-GFDL/MOM6 into dev/master
    356098a MOM6: Added ZSTAR_RIGID_SURFACE_THRESHOLD ice-shelf work around
    f23b6ec MESO_025_23L input file links
    32a5314 Merge pull request #97 from nicjhan/jenkins-embeddable-build-status
    89207c3 MOM6: Updated seamount to work in 3D
    1fc1453 Add build status tags which link to ARCCSS jenkins.
    559030f Updated input data links for AM2_LM3_SIS2 tests
    3242cd5 MOM6: Merge branch 'wfcooke-dye_tracers_wfc' into dev/master
    38e138e Corrected doc files in seamount/rho
    7531887 Merge pull request #96 from NOAA-GFDL/user/jpk/ice_diagnostic_tweak
    a9860b4 MOM6: +Call MOM_diag_mediator_init after MOM_init_state
    784fecc Add 'unalis python' to sea ice script
    545d07b MOM6: *Changed the default for PRANDTL_TURB to 1
    bb0ac73 Added two unforced ISOMIP test cases
  • dev/master/2016.05.26
    dev/master/2016.05.26
    
    - Moved baseline OM4_025 forward touse Hybrid coords, shallower and weaker MLE
      and more stable time-steps.
    
    a85a27d OM4_025: Adjusted time-steps for efficiency/stability
    c2a0706 *OM4_025: Modified topography to correct Wyville-Thompson ridge
    717e2b7 SIS2: Moving submodule SIS2 forward
    3b2fae7 MOM6: Moving MOM6 submodule forward
    9dae311 OM4_025: Turned on truncation reports in SIS2
    24fbefa *OM4_025: Changed strength of MLE parameterization
    e974200 *OM4_025: Updated OM4 to use new MLE scheme
    9f67bfb *OM4_025: Updated OM4 to use hybrid coordinates
    23ef412 OM4_025: Updated MOM_input/SIS_input from parameter_doc.short
    2729119 MOM6: +Added initialization option to fit salinity
    28c5c98 MOM6: Added run-time parameter to name z-remapped output component.
    5a19ac4 Added thetao to global_ALE _z diag_table
    a612fad MOM6: Merge branch 'dev/master' of github.com:NOAA-GFDL/MOM6 into dev/master
    7049ed6 MOM6: Added WIND_STRESS_MULTIPLIER for experimentation
    cf2e2b4 OM4_05: Added draft of 0.5 degree OM4
    855e8f4 Analysis: replaced "== None" with "is None"
  • dev/master/2016.05.13
    dev/master/2016.05.13
    
    Major answer changes:
    - Transition from c1 to c3 (onGaea)
      - 5a0939c *Updated answers to gaea c3
    - Bugfix for double counting of viscosity
      - 3e4cae4 MOM6: *Answer changes due to bug fixed by B. Reichl
      - 41faa65 MOM6: *Answer changes due to bug fixed by B. Reichl
    
    f9ee9bb MOM6: Updated to head of dev/master
    4b7a999 icebergs: Updated to head of dev/master
    95e3394 Added missed MOM_parameter_doc
    d6e3b3b MOM6: +Added parameter to thicken viscous boundary layers
    d2f1489 Use python/2.7.3_workstation on PAN nodes for analysis
    bdfa235 MOM6: Added ISOMIP source code
    d6b945f MOM6: Added run-time options for new remapping algorithms
    96bfefd MOM6: Updated to latest commit
    acfa2cf mkmf: now supports -l option for link flags
    f4a95c0 MOM6: *Added halo updates with ALE_remap_init_conds
    ab703cf *MOM6: Reverting 2f529dc8c7ao due to PGI problem
    2f529dc *MOM6: Corrected remapping for zero-thickness source grid
    156fbf5 MOM6: *Rewrote find_root for set_grid_metrics_mercator
    f617960 Corrected typo in Windward passage diagn thetao
    75c60a9 Merge branch 'dev/master' of github.com:NOAA-GFDL/MOM6-examples into dev/master
    49affaf Mods to PEUC section to correspond to literature.
    872833f *MKMF: Update intel template with -msse2
    8c75f34 Repalced PNG in flow_downslope with jupyter notebook
    cebb896 Merge pull request #91 from NOAA-GFDL/user/mjh/OM_360x320_C180
    5ead4b7 Merge branch 'dev/master' into user/mjh/OM_360x320_C180
    d130360 Diagnostics modification for neutral diffusion
    bbcd9c2 MOM6: Added comment about how G%max_depth is set
    5a0939c *Updated answers to gaea c3
    0cc12f9 Added submodule src/mkmf
    83ddbce SIS2: Updated src/SIS2
    ac7fa88 MOM6: Updated src/MOM6
    3512a7b Fix version of fre_nctools for OM4_025 preprocessing
    1b4acd1 Merge pull request #85 from NOAA-GFDL/user/nnz/calc_variance_5daily_fix
    db1a4a1 Merge pull request #86 from NOAA-GFDL/user/mjh/gfdl_python_module_fix
    6f41566  Fix GFDL python module problem
    e98f26e include an extra data point in August
    6c7a177 Fix script calc_variance.py to use ocean_5daily
    17a07e8 Updated MOM_example_docs for mothballed examples
    2e655c1 SIS2: *Corrected Celsius to Kelvin conversion
    ae16691 SIS2: +Set LATENT_HEAT_FUSION at run time
    a526063 SIS2 & coupler: +Eliminated cell_area and Ice%ice_mask
    34ddb30 SIS2: *+G_EARTH and OMEGA are SIS2 runtime parameters
    3e4cae4 MOM6: *Answer changes due to bug fixed by B. Reichl
    41faa65 MOM6: *Answer changes due to bug fixed by B. Reichl
    d81aa9a Updating MOM6 code
    10ce4d6 SIS2: +Added CHANNEL_CONFIG and related code to SIS2
    b43d6e0 Merge branch 'dev/master' of github.com:NOAA-GFDL/MOM6-examples into dev/master
    8fa008a Diagnostics for SSS_sq and ndiff tracer transport
    0914d9d SIS2: +Ported MOM6 code into SIS_fixed_initialization
    caa8085 Refactored flow_downslope (DOME2d) initialization
    8008b1f Undid SYMMETRIC_MEMORY_ in ice_ocean_SIS2 parameter docs
    bdb9dd5 Updated MOM_parameter_doc for seamount/rho
    7adf792 SIS2: Made GLOBAL_INDEXING a layoutParam & log G_EARTH
    7cb786f Merge remote-tracking branch 'refs/remotes/origin/dev/master' into dev/master
    a93ef3d MOM6: Made GLOBAL_INDEXING a layoutParam.
    570b74f SIS2: +Added required GRID_CONFIG parameter to SIS2
    51b0d76 Merge pull request #83 from NOAA-GFDL/user/mjh/fix_ts_depth_integrals
    72af50b Fix TS_depth_integrals.py to work with CMOR output
    b14d5c3 MOM6: *Changed default KV_BBL_MIN to KV
    792e227 MOM6: +Split MOM_coord_initialization from MOM_fixed_init
    9349db3 SIS2: Changed to use MOM6-like code in setting masks
    9f6157a MOM6: +Added MOM_initialize_coord
    f5eea84 MOM6: +Moved WRITE_GEOM into initialize_MOM
    c547a34 SIS2: +Added NIBLOCK and NJBLOCK
    93f2c74 MOM6: +Added GLOBAL_INDEXING run-time parameter
    06ec2c9 Added Davis strait and remove Canadian Archipelago
    f994c3c MOM6: Fixed "rhoinsitu" diagnostic
    5523e8e Corrected latitudes in Pacific EUC diagnostic
    0a19709 MOM6: +Revised ocean_grid_type to harmonize with SIS2
    909ff11 MOM6: Added diagnostics of potential and in-situ density
    e8c8148 MOM6: *Separated initial profile from coordinate in sea mount test
    371e828 Updated seamount example to use "ts_range" coordinate mode
    c970ffd Merge pull request #80 from NOAA-GFDL/user/jpk/smg_section_flow_plots
    4a6bf80 Typo with Taiwan-Luzon Strait
    56c7800 Added obs values and color coding
    f00b5ae Merge pull request #78 from NOAA-GFDL/user/jpk/smg_section_flow_plots
    5d96bc3 Updated comment for argparse description
    6295d96 Minor update to dora label
    ce5baf7 Analysis script for plotting section flows
    74081e2 MOM6: Changed the default for DEPTH_LIST_MIN_INC
    fbcfd5b Added rsdo = penetrative SW diagnostic for CMIP6
    663a870 Change diagnostic rsdo to rsdoabsorb as per CMIP6
    da09ccc Shortened land_.../OM_360x320_C180 to 1 day
    ecaccd0 Added static_input.nml for land.../OM_360x320_C180
    bd75815 MOM6: *Replaced Area*GV%Angstrom*0.1 by Area*h_min
    dcbeae8 *Updated seamount example to use GFS = 9.8
    c1854b6 Merge pull request #76 from NOAA-GFDL/user/jpk/minor_dora_updates
    e7c5a3e 'centered' vs. 'autocenter' fix to TS_drift.py
    3a511b5 Merge branch 'gustavo-marques-seamount_rho' into dev/master
    a045362 *Added ocean.stats for seamount/rho
    bdf1fdc Corrected MOM_parameter_doc for seamount/rho
    9525f6c Merge branch 'seamount_rho' of https://github.com/gustavo-marques/MOM6-examples into gustavo-marques-seamount_rho
    f498510 Merge pull request #74 from NOAA-GFDL/user/jpk/dora_analysis_mods
    4e7ae2b New coordinate, rho, for the seamount test.
  • dev/master/2016.03.22
    dev/master/2016.03.22
    
    - 35a0204 MOM6: Updated OpenMP directives
      - NOAA-GFDL/MOM6@69d9e15 Updated OpenMP directives
      - NOAA-GFDL/MOM6@15cc139 Corrected NOAA-GFDL/MOM6@aba072cbfa1ce447e9a3942f9fd98669d2601d25
      - NOAA-GFDL/MOM6@aba072c Fixed restarts with the new mixedlayer_restrat + DIABATIC_FIRST=False
      - NOAA-GFDL/MOM6@b4f8cdb Bug fix: Uninitialized data in Kd_ePBL
    - 63167ac SIS2: OpenMP updates
    - d2e3037 MOM6: Added link between CMOR/native names in available_diags
    - 1503160 Log spatial cell_methods in available_diags
    - 60355e6 MOM6: Added CMOR versions of _z_new diagnostics
      - NOAA-GFDL/MOM6@bd04faa updates available_diags.
      - NOAA-GFDL/MOM6@bd04faa Added CMOR versions of _z_new diagnostics
      - NOAA-GFDL/MOM6@73637b4 Added CF-convention "cell_methods" attribute to output
      - NOAA-GFDL/MOM6@fcf70eb Refactored MOM_diag_mediator to use remapping_core_h
      - NOAA-GFDL/MOM6@e82522b Symmetrized PLM and PPM pointwise evaluation
      - NOAA-GFDL/MOM6@c0dc2c2 Arguments to remap_all_state_vars() include h_new
      - NOAA-GFDL/MOM6@e28e854 Moved more parameters into set_regrid_params()
      - NOAA-GFDL/MOM6@3077ecb Added remapping_set_param(), rewrote initialize_remapping()
      - NOAA-GFDL/MOM6@653775f Deleted unused s/r in remapping
      - NOAA-GFDL/MOM6@685b1e7 Use remapping_core_h() in remap_all_state_vars()
      - NOAA-GFDL/MOM6@6b33a01 Grouped debugging call to measure_input_bounds() in MOM_remapping.F90
      - NOAA-GFDL/MOM6@e3027af Removed debugging line MOM_remapping.F90
      - NOAA-GFDL/MOM6@b1567da +Removed thickness unit conversions from ocean_grid_type
      - NOAA-GFDL/MOM6@89bfbbc +Removed Angstrom and H_subroundoff from ocean_grid_type
      - NOAA-GFDL/MOM6@d12b5f1 +Removed Boussinesq and Rho0 from ocean_grid_type
    - 5b845b9 Updated SIS parameter docs in land_ice_ocean_LM3_SIS2
    - 151dfe1 Updated parameter docs in land_ice_ocean_LM3_SIS2
    - b20f2ef MOM6: +Moved get_flux_units to MOM_verticalGrid
    - 276938f SIS2: +Separated set_hor_grid from set_ice_grid
  • dev/master/2016.03.02
    dev/master/2016.03.02
    
    - Fixed restart problem with new PBL depth used in mixed-layer restratification (4d54998).
    - Added work-around for ice-ocean coupled instability triggered by strong ice-ocean
      stresses (90ac4f6).
    
    - 0a3197c SIS2: Updated OMP directives
    - 7699d43 Merge branch 'user/jpk/OM4_05_analysis_mods' into dev/master
    - 4d54998 MOM6: (*)Bugfix: update halo after restarts for mixed_layer_restrat
    - 90ac4f6 SIS2: Added parameter for the minimal inertial thickness of ocean
    - 08499ae Added error messages for some common failures
    - 0b71b84 Set-up modules environment for GFDL systems
    - bd77926 Simple CSH script to repair automated frepp analysis
    - f9b8b0c Updates for dora web analysis
    - 2c9c497 Updated land_ice_ocean_LM3_SIS2 MOM_parameter_doc missed in previous commit
    - ea37d37 Generic tracer update from JGJ
    - ffe9724 Bring ESM4 SIS2 up-to-date
    - 12cabc9 Updated .frepp files
    - c344903 Analysis mods for use with multiple grids
    - 0816e7d Analysis script to compute y-direction heat transport
    - 33acab5 MOM6: *Changed fluxes%p_surf_SSH to fluxes%p_surf_full
    - eca2acd MOM6: Added fluxes%p_surf_SSH
    - 43b83c3 MOM6: Fixed halo in MLD passed to MLE from PBL
    - 64738c8 (*)OM4_025: Correctly damp gravity waves due to sea-ice rigidity
    - a970b85 OM4_025: Added monthly t,s,u,v to ocean_month_z
    - 1a17c37 Removed 8 test cases from routine testing.
    - 5c667a5 SIS2: Updated SIS_parameter_doc.all for land_ice_ocean_LM3_SIS2
    - 4979616 SIS2: *Enabled SIS2_FILLING_FRAZIL for Baltic test case
    - c47e7e5 Removed unused parameters from Baltic SIS_input
    - 4d2f30a +Added the SIS2_FILLING_FRAZIL option
    - e42d419 Updated answers in land_ice_ocean_LM3_SIS2/OM_360x320_C180
    - 80b4fc7 *Changed OCEAN_SURFACE_STAGGER to "C" for OM4_025
  • user/jpk/2016.02.18
  • dev/master/2016.02.03
    dev/master/2016.02.03
    
    - SIS2: Reordered flux accumulation in SIS2_thermo
    - OM4: Enabled river heat content in ALE mode
    - Major re-factor of vertical remapping (cf 86c37fe, 9368f46, caae885, 6628d63, 86c37fe)
    
    - 98950b6 MOM6: *Changed default for OCEAN_SURFACE_STAGGER to "C"
    - bfa9db3 MOM6: *Corrected arguments in 3 calls to set_time
    - 21b878b Reduced stats file lengths for single_column cases
    - 86c37fe *MOM6: Bounds edges after limiting
    - 6628d63 *MOM6: Ensure bound_edge_values() is bounded!
    - ae26132 MOM6: Added option REMAP_BOUND_INTERMEDIATE_VALUES
    - 8b6f862 *Updated land_ice_ocean_LM3_SIS2/OM_360x320_C180 missed in last commit
    - 5b780b1 SIS2: *Reordered flux accumulation in SIS2_thermo
    - eb9bb7e Edits to OMIP diagnostic long names.
    - 7d667b9 Merge branch 'dev/master' of github.com:NOAA-GFDL/MOM6-examples into dev/master
    - c6dac00 Edits to the comments in this table for clarity.
    - caae885 *MOM6: Switched to remap_via_sub_cells() method
    - 8ec068f Merge pull request #71 from NOAA-GFDL/user/nnz/fix_EddyKineticEnergyScript
    - 6470d1b Use full grid ocean_static.nc
    - f24b9a1 MOM6: Added ability to check result of remapping
    - 9368f46 *MOM6: Re-factored PPM_functions.F90
    - 2147c23 *MOM6: Rewrote PLM to completely satisfy bounds
    - a9e3d6c MOM6: Added ability to check reconstructions
    - 6619c78 (*)MOM6: Enabled river heat content in ALE mode
    - cb6cb4f MOM6: Merge branch 'bmater-ray_tracing' into dev/master
    - 0166793 Added "protected" comment to OM4_025 diag_table
    - 0c51a85 Fix the analysis script to use ocean_5daily.nc
    - d00206c Added missed MOM_parameter_dco in last commit
    - 6b67b20 MOM6: MOM_parameter_doc.all changes from merge
    - 94133e5 Merge pull request #66 from tahvildarzadeh/patch-2
  • dev/master/2016.01.16
    dev/master/2016.01.16
    
    OM4_025 configuration changes:
    - Added sea-ice rigidity that damps gravity waves
    - Also added back weak AH_VEL_SCALE for biharmonic viscosity
    - Changed C_P to more sensible value
    - Activated topography edits including for Caribbean and Red Sea.
    
    - 3396c8f MOM6: Fix a memory leak for diagnostic Kd_user
    - e29c4a9 OM4_025: Damp gravity waves due to sea-ice rigidity
    - b835145 OM4_025: Changed heat capacity C_P
    - d2d224e Added topo edits to baseline OM4_025
    - ccb7caa Updated MOM_params missed in last commit
    - 48c71a2 MOM6: Check if regrid target densities are set
    - 2801b5d MOM6: *Use implicit temporal weights for ALE regridding
    - b0c5796 Analysis: Create SSH variance from 5 daily fields
    - f457411 OM4_025: Added Caribbean and Red Sea topography edits
    - 01ec404 Added annual diagnostics and salte_restore diagn.
    - 7af8687 Merged with diag_table.CMIP6 and reorganized.
    - 17097ff Table is obsolete: merged into diag_table.MOM6
    - 5b23e4d File now placed in OM4_025 test directory.
    - ae3df83 Updated notebook analysis for straights transport
    - 80400df MOM6: Added call to set_filter_depths() from MOM_ALE.F90
    - d1d232a SIS2: Allow SIS2 to compile with -openmp
    - ac4f991 Updated parameter_doc files missed in last commt
    - 0a09f4e MOM6: +Added module MOM_hor_index and hor_index_type.
    - ec01382 Added CPU_stats.* after labels added to ENERGYFILE
    - 1887444 MOM6: Changed the default for ENERGYFILE to ocean.stats