From 37f982485207ef88c12f0b427a41836ce300eae4 Mon Sep 17 00:00:00 2001 From: Tommy Gatti Date: Thu, 13 Jun 2024 09:36:02 +1000 Subject: [PATCH 1/2] Add config stuff --- accessom2.nml | 20 + atmosphere/atm.nml | 6 + atmosphere/forcing.json | 62 + config.yaml | 110 + doc/Fabio2018_Namelist_meeting_final.pdf | Bin 0 -> 89070 bytes ice/cice_in.nml | 376 +++ ice/input_ice.nml | 29 + ice/input_ice_gfdl.nml | 25 + ice/input_ice_monin.nml | 3 + manifests/exe.yaml | 18 + manifests/input.yaml | 3544 ++++++++++++++++++++++ manifests/restart.yaml | 3 + metadata.yaml | 34 + namcouple | 307 ++ ocean/data_table | 13 + ocean/diag_table | 392 +++ ocean/field_table | 63 + ocean/input.nml | 604 ++++ tools/diag_table_source.yaml | 344 +++ tools/make_diag_table.py | 143 + tools/resub.sh | 60 + 21 files changed, 6156 insertions(+) create mode 100644 accessom2.nml create mode 100644 atmosphere/atm.nml create mode 100644 atmosphere/forcing.json create mode 100644 config.yaml create mode 100755 doc/Fabio2018_Namelist_meeting_final.pdf create mode 100644 ice/cice_in.nml create mode 100644 ice/input_ice.nml create mode 100644 ice/input_ice_gfdl.nml create mode 100644 ice/input_ice_monin.nml create mode 100644 manifests/exe.yaml create mode 100644 manifests/input.yaml create mode 100644 manifests/restart.yaml create mode 100644 metadata.yaml create mode 100644 namcouple create mode 100644 ocean/data_table create mode 100644 ocean/diag_table create mode 100644 ocean/field_table create mode 100644 ocean/input.nml create mode 100755 tools/diag_table_source.yaml create mode 100755 tools/make_diag_table.py create mode 100755 tools/resub.sh diff --git a/accessom2.nml b/accessom2.nml new file mode 100644 index 0000000..ff41df1 --- /dev/null +++ b/accessom2.nml @@ -0,0 +1,20 @@ +&accessom2_nml + log_level = 'DEBUG' + + ! ice_ocean_timestep defines the MOM baroclinic timestep, CICE thermodynamic timestep + ! and MOM-CICE coupling interval, in seconds. + ! ice_ocean_timestep is normally a factor of the JRA55-do forcing period of 3hr = 10800s, + ! e.g. one of 100, 108, 120, 135, 144, 150, 180, 200, 216, 225, 240, 270, 300, 360, 400, 432, + ! 450, 540, 600, 675, 720, 900, 1080, 1200, 1350, 1800, 2160, 2700, 3600 or 5400 seconds. + ! The model is usually stable with a 5400s timestep, including in the initial spinup from rest. + ice_ocean_timestep = 5400 +&end + +&date_manager_nml + forcing_start_date = '1958-01-01T00:00:00' + forcing_end_date = '2019-01-01T00:00:00' + + ! Runtime for a single segment/job/submit, format is years, months, seconds, + ! two of which must be zero. + restart_period = 5, 0, 0 +&end diff --git a/atmosphere/atm.nml b/atmosphere/atm.nml new file mode 100644 index 0000000..1b8a20f --- /dev/null +++ b/atmosphere/atm.nml @@ -0,0 +1,6 @@ +&atm_nml +/ + +&runoff_nml + remap_weights_file = 'INPUT/rmp_jrar_to_cict_CONSERV.nc' +/ diff --git a/atmosphere/forcing.json b/atmosphere/forcing.json new file mode 100644 index 0000000..8a35d57 --- /dev/null +++ b/atmosphere/forcing.json @@ -0,0 +1,62 @@ +{ + "description": "JRA55-do v1.4.0 IAF forcing", + "inputs": [ + { + "filename": "INPUT/rsds_input4MIPs_atmosphericState_OMIP_MRI-JRA55-do-1-4-0_gr_{{year}}01010130-{{year}}12312230.nc", + "fieldname": "rsds", + "cname": "swfld_ai" + }, + { + "filename": "INPUT/rlds_input4MIPs_atmosphericState_OMIP_MRI-JRA55-do-1-4-0_gr_{{year}}01010130-{{year}}12312230.nc", + "fieldname": "rlds", + "cname": "lwfld_ai" + }, + { + "filename": "INPUT/prra_input4MIPs_atmosphericState_OMIP_MRI-JRA55-do-1-4-0_gr_{{year}}01010130-{{year}}12312230.nc", + "fieldname": "prra", + "cname": "rain_ai" + }, + { + "filename": "INPUT/prsn_input4MIPs_atmosphericState_OMIP_MRI-JRA55-do-1-4-0_gr_{{year}}01010130-{{year}}12312230.nc", + "fieldname": "prsn", + "cname": "snow_ai" + }, + { + "filename": "INPUT/psl_input4MIPs_atmosphericState_OMIP_MRI-JRA55-do-1-4-0_gr_{{year}}01010000-{{year}}12312100.nc", + "fieldname": "psl", + "cname": "press_ai" + }, + { + "filename": "INPUT/friver_input4MIPs_atmosphericState_OMIP_MRI-JRA55-do-1-4-0_gr_{{year}}0101-{{year}}1231.nc", + "fieldname": "friver", + "cname": "runof_ai", + "domain": "land" + }, + { + "filename": "INPUT/tas_input4MIPs_atmosphericState_OMIP_MRI-JRA55-do-1-4-0_gr_{{year}}01010000-{{year}}12312100.nc", + "fieldname": "tas", + "cname": "tair_ai" + }, + { + "filename": "INPUT/huss_input4MIPs_atmosphericState_OMIP_MRI-JRA55-do-1-4-0_gr_{{year}}01010000-{{year}}12312100.nc", + "fieldname": "huss", + "cname": "qair_ai" + }, + { + "filename": "INPUT/uas_input4MIPs_atmosphericState_OMIP_MRI-JRA55-do-1-4-0_gr_{{year}}01010000-{{year}}12312100.nc", + "fieldname": "uas", + "cname": "uwnd_ai" + }, + { + "filename": "INPUT/vas_input4MIPs_atmosphericState_OMIP_MRI-JRA55-do-1-4-0_gr_{{year}}01010000-{{year}}12312100.nc", + "fieldname": "vas", + "cname": "vwnd_ai" + }, + { + "filename": "INPUT/licalvf_input4MIPs_atmosphericState_OMIP_MRI-JRA55-do-1-4-0_gr_{{year}}0101-{{year}}1231.nc", + "fieldname": "licalvf", + "cname": "licalvf_ai", + "domain": "land" + } + ] +} diff --git a/config.yaml b/config.yaml new file mode 100644 index 0000000..3a565d1 --- /dev/null +++ b/config.yaml @@ -0,0 +1,110 @@ +# PBS configuration + +# If submitting to a different project to your default, uncomment line below +# and replace PROJECT_CODE with appropriate code. This may require setting shortpath +# project: PROJECT_CODE + +# Force payu to always find, and save, files in this scratch project directory +# shortpath: /scratch/PROJECT_CODE + +queue: normal +walltime: 3:00:00 +jobname: 1deg_jra55_iaf +mem: 1000GB + +# Sync options for automatically copying data from ephemeral scratch space to +# longer term storage +sync: + enable: False # set path below and change to true + path: null # Set to location on /g/data or a remote server and path (rsync syntax) + +# Model configuration +name: common +model: access-om2 +input: + - /g/data/vk83/experiments/inputs/access-om2/remapping_weights/JRA55/global.1deg/2020.05.30/JRA55_MOM1_conserve2nd.nc + - /g/data/vk83/experiments/inputs/access-om2/remapping_weights/JRA55/global.1deg/2020.05.30/JRA55_MOM1_patch.nc + - /g/data/vk83/experiments/inputs/access-om2/remapping_weights/JRA55/global.1deg/2020.05.30/rmp_jra55_cice_1st_conserve.nc + - /g/data/vk83/experiments/inputs/access-om2/remapping_weights/JRA55/global.1deg/2020.05.30/rmp_jra55_cice_2nd_conserve.nc + - /g/data/vk83/experiments/inputs/access-om2/remapping_weights/JRA55/global.1deg/2020.05.30/rmp_jra55_cice_patch.nc +submodels: + - name: atmosphere + model: yatm + exe: /g/data/vk83/apps/spack/0.20/release/linux-rocky8-x86_64/intel-19.0.5.281/libaccessom2-git.2023.10.26=2023.10.26-ltfg7jcn6t4cefotvj3kjnyu5nru26xo/bin/yatm.exe + input: + - /g/data/vk83/experiments/inputs/access-om2/remapping_weights/JRA55/global.1deg/2020.05.30/rmp_jrar_to_cict_CONSERV.nc + - /g/data/qv56/replicas/input4MIPs/CMIP6/OMIP/MRI/MRI-JRA55-do-1-4-0/atmos/3hr/rsds/gr/v20190429 + - /g/data/qv56/replicas/input4MIPs/CMIP6/OMIP/MRI/MRI-JRA55-do-1-4-0/atmos/3hr/rlds/gr/v20190429 + - /g/data/qv56/replicas/input4MIPs/CMIP6/OMIP/MRI/MRI-JRA55-do-1-4-0/atmos/3hr/prra/gr/v20190429 + - /g/data/qv56/replicas/input4MIPs/CMIP6/OMIP/MRI/MRI-JRA55-do-1-4-0/atmos/3hr/prsn/gr/v20190429 + - /g/data/qv56/replicas/input4MIPs/CMIP6/OMIP/MRI/MRI-JRA55-do-1-4-0/atmos/3hrPt/psl/gr/v20190429 + - /g/data/qv56/replicas/input4MIPs/CMIP6/OMIP/MRI/MRI-JRA55-do-1-4-0/land/day/friver/gr/v20190429 + - /g/data/qv56/replicas/input4MIPs/CMIP6/OMIP/MRI/MRI-JRA55-do-1-4-0/atmos/3hrPt/tas/gr/v20190429 + - /g/data/qv56/replicas/input4MIPs/CMIP6/OMIP/MRI/MRI-JRA55-do-1-4-0/atmos/3hrPt/huss/gr/v20190429 + - /g/data/qv56/replicas/input4MIPs/CMIP6/OMIP/MRI/MRI-JRA55-do-1-4-0/atmos/3hrPt/uas/gr/v20190429 + - /g/data/qv56/replicas/input4MIPs/CMIP6/OMIP/MRI/MRI-JRA55-do-1-4-0/atmos/3hrPt/vas/gr/v20190429 + - /g/data/qv56/replicas/input4MIPs/CMIP6/OMIP/MRI/MRI-JRA55-do-1-4-0/landIce/day/licalvf/gr/v20190429 + ncpus: 1 + + - name: ocean + model: mom + exe: /g/data/vk83/apps/spack/0.20/release/linux-rocky8-x86_64/intel-19.0.5.281/mom5-git.2023.11.09=2023.11.09-qji4nlmr6utrribaiyhewe4je6mifguz/bin/fms_ACCESS-OM.x + input: + - /g/data/vk83/experiments/inputs/access-om2/ocean/grids/mosaic/global.1deg/2020.05.30/grid_spec.nc + - /g/data/vk83/experiments/inputs/access-om2/ocean/grids/mosaic/global.1deg/2020.05.30/ocean_hgrid.nc + - /g/data/vk83/experiments/inputs/access-om2/ocean/grids/mosaic/global.1deg/2020.05.30/ocean_mosaic.nc + - /g/data/vk83/experiments/inputs/access-om2/ocean/grids/bathymetry/global.1deg/2020.10.22/topog.nc + - /g/data/vk83/experiments/inputs/access-om2/ocean/grids/bathymetry/global.1deg/2020.10.22/ocean_mask.nc + - /g/data/vk83/experiments/inputs/access-om2/ocean/grids/vertical/global.1deg/2020.10.22/ocean_vgrid.nc + - /g/data/vk83/experiments/inputs/access-om2/ocean/processor_masks/global.1deg/216.16x15/2020.05.30/ocean_mask_table + - /g/data/vk83/experiments/inputs/access-om2/ocean/chlorophyll/global.1deg/2020.05.30/chl.nc + - /g/data/vk83/experiments/inputs/access-om2/ocean/initial_conditions/global.1deg/2020.10.22/ocean_temp_salt.res.nc + - /g/data/vk83/experiments/inputs/access-om2/ocean/tides/global.1deg/2020.05.30/tideamp.nc + - /g/data/vk83/experiments/inputs/access-om2/ocean/tides/global.1deg/2020.05.30/roughness_amp.nc + - /g/data/vk83/experiments/inputs/access-om2/ocean/tides/global.1deg/2020.05.30/roughness_cdbot.nc + - /g/data/vk83/experiments/inputs/access-om2/ocean/surface_salt_restoring/global.1deg/2020.05.30/salt_sfc_restore.nc + ncpus: 216 + + - name: ice + model: cice5 + exe: /g/data/vk83/apps/spack/0.20/release/linux-rocky8-x86_64/intel-19.0.5.281/cice5-git.2023.10.19=2023.10.19-v3zncpqjj2gyseudbwiudolcjq3k3leo/bin/cice_auscom_360x300_24x1_24p.exe + input: + - /g/data/vk83/experiments/inputs/access-om2/ice/grids/global.1deg/2020.05.30/grid.nc + - /g/data/vk83/experiments/inputs/access-om2/ice/grids/global.1deg/2020.10.22/kmt.nc + - /g/data/vk83/experiments/inputs/access-om2/ice/initial_conditions/global.1deg/2020.05.30/i2o.nc + - /g/data/vk83/experiments/inputs/access-om2/ice/initial_conditions/global.1deg/2020.05.30/o2i.nc + - /g/data/vk83/experiments/inputs/access-om2/ice/initial_conditions/global.1deg/2020.05.30/u_star.nc + - /g/data/vk83/experiments/inputs/access-om2/ice/initial_conditions/global.1deg/2020.05.30/monthly_sstsss.nc + ncpus: 24 + +# Collation +collate: + restart: true + walltime: 1:00:00 + mem: 30GB + ncpus: 4 + queue: normal + exe: /g/data/vk83/apps/spack/0.20/release/linux-rocky8-x86_64/intel-19.0.5.281/mom5-git.2023.11.09=2023.11.09-qji4nlmr6utrribaiyhewe4je6mifguz/bin/mppnccombine.spack + +# Misc +runlog: true +stacksize: unlimited +restart_freq: 5YS +mpirun: --mca io ompio --mca io_ompio_num_aggregators 1 +qsub_flags: -W umask=027 +env: + UCX_LOG_LEVEL: 'error' + +manifest: + reproduce: + exe: True + +# set number of cores per node (28 for normalbw, 48 for normal on gadi) +platform: + nodesize: 48 + +# sweep and resubmit on specific errors - see 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zjs?{2Ra`MKas1W+{%3zIY_H}XRHqnJkoQ%)S98k5!U0lC{-Yfm_Up<$sjLg5)%l}~u+BaU?vT%TQv{&r_f363}_H}=(EX;pC zgRHEt=LNvV{yS^uA7cTn8{?nr0m7L7oEH%G>UjgOGlEiv{^*aL`PCY+fyVcz4-och z?m^hAeF%j8evkZP%xtV2ujZKz!1(Ik*g;$IpZ5#G*!~;~2z&J`fcD~7`z|{tUQl__e0DUR>>m|>@&IqbVKt?7kBLe&X E05LiC5C8xG literal 0 HcmV?d00001 diff --git a/ice/cice_in.nml b/ice/cice_in.nml new file mode 100644 index 0000000..44614e4 --- /dev/null +++ b/ice/cice_in.nml @@ -0,0 +1,376 @@ +&setup_nml + days_per_year = 365 + dbug = .false. + diag_file = 'ice_diag.d' + diag_type = 'file' + diagfreq = 960 + dt = 3600 + dump_last = .true. + dumpfreq = 'y' + dumpfreq_n = 1 + hist_avg = .true. + histfreq = 'd', 'm', 'x', 'x', 'x' + histfreq_n = 1, 1, 1, 1, 1 + history_chunksize_x = 180 + history_chunksize_y = 150 + history_deflate_level = 1 + history_dir = './OUTPUT/' + history_file = 'iceh' + ice_ic = 'default' + incond_dir = './OUTPUT/' + incond_file = 'iceh_ic' + istep0 = 0 + latpnt = 90.0, -65.0 + lonpnt = 0.0, -45.0 + ndtd = 1 + npt = 35040 + pointer_file = './RESTART/ice.restart_file' + print_global = .false. + print_points = .false. + restart = .false. + restart_dir = './RESTART/' + restart_ext = .false. + restart_file = 'iced' + runtype = 'initial' + use_leap_years = .false. + use_restart_time = .true. + write_ic = .false. + year_init = 1 +/ + +&grid_nml + grid_file = 'RESTART/grid.nc' + grid_format = 'nc' + grid_type = 'tripole' + kcatbound = 0 + kmt_file = 'RESTART/kmt.nc' +/ + +&domain_nml + distribution_type = 'cartesian' + distribution_wght = 'latitude' + ew_boundary_type = 'cyclic' + maskhalo_bound = .true. + maskhalo_dyn = .true. + maskhalo_remap = .true. + nprocs = 24 + ns_boundary_type = 'tripole' + processor_shape = 'slenderX1' +/ + +&tracer_nml + restart_aero = .false. + restart_age = .false. + restart_fy = .false. + restart_lvl = .false. + restart_pond_cesm = .false. + restart_pond_lvl = .false. + restart_pond_topo = .false. + tr_aero = .false. + tr_fy = .false. + tr_iage = .false. + tr_lvl = .false. + tr_pond_cesm = .false. + tr_pond_lvl = .false. + tr_pond_topo = .false. +/ + +&thermo_nml + a_rapid_mode = 0.0005 + aspect_rapid_mode = 1.0 + chio = 0.006 + conduct = 'bubbly' + dsdt_slow_mode = -5e-08 + kitd = 1 + ktherm = 1 + phi_c_slow_mode = 0.05 + phi_i_mushy = 0.85 + rac_rapid_mode = 10.0 +/ + +&dynamics_nml + advection = 'remap' + cosw = 1.0 + dragio = 0.00536 + iceruf = 0.0005 + kdyn = 1 + krdg_partic = 1 + krdg_redist = 1 + kstrength = 1 + mu_rdg = 3 + ndte = 120 + revised_evp = .false. + sinw = 0.0 +/ + +&shortwave_nml + ahmax = 0.1 + albedo_type = 'default' + albicei = 0.44 + albicev = 0.86 + albsnowi = 0.7 + albsnowv = 0.98 + dalb_mlt = -0.02 + dt_mlt = 1.0 + r_ice = 0.0 + r_pnd = 0.0 + r_snw = 0.0 + rsnw_mlt = 1500.0 + shortwave = 'default' + snowpatch = 0.02 + tocnfrz = -1.8 +/ + +&ponds_nml + dpscale = 0.001 + frzpnd = 'hlid' + hp1 = 0.01 + hs0 = 0.0 + hs1 = 0.03 + pndaspect = 0.8 + rfracmax = 1.0 + rfracmin = 0.15 +/ + +&zbgc_nml + bgc_data_dir = 'unknown_bgc_data_dir' + bgc_flux_type = 'Jin2006' + nit_data_type = 'default' + phi_snow = 0.5 + restart_bgc = .false. + restart_hbrine = .false. + restore_bgc = .false. + sil_data_type = 'default' + skl_bgc = .false. + tr_bgc_am_sk = .false. + tr_bgc_c_sk = .false. + tr_bgc_chl_sk = .false. + tr_bgc_dms_sk = .false. + tr_bgc_dmspd_sk = .false. + tr_bgc_dmspp_sk = .false. + tr_bgc_sil_sk = .false. + tr_brine = .false. +/ + +&forcing_nml + atm_data_dir = 'unknown_atm_data_dir' + atm_data_format = 'nc' + atm_data_type = 'default' + atmbndy = 'default' + calc_strair = .true. + calc_tsfc = .true. + formdrag = .false. + fyear_init = 1 + highfreq = .true. + oceanmixed_file = 'unknown_oceanmixed_file' + oceanmixed_ice = .false. + ocn_data_dir = 'unknown_ocn_data_dir' + ocn_data_format = 'nc' + precip_units = 'mks' + restore_ice = .false. + restore_sst = .false. + sss_data_type = 'default' + sst_data_type = 'default' + tfrz_option = 'linear_salt' + trestore = 0 + update_ocn_f = .true. + ustar_min = 0.0005 + ycycle = 1 +/ + +&icefields_nml + f_aice = 'md' + f_aicen = 'm' + f_aisnap = 'x' + f_albice = 'm' + f_albpnd = 'x' + f_albsni = 'm' + f_albsno = 'm' + f_alidf_ai = 'x' + f_alidr = 'x' + f_alidr_ai = 'x' + f_alvdf_ai = 'x' + f_alvdr = 'x' + f_alvdr_ai = 'x' + f_angle = .true. + f_anglet = .true. + f_bounds = .false. + f_congel = 'md' + f_coszen = 'x' + f_dagedtd = 'x' + f_dagedtt = 'x' + f_daidtd = 'm' + f_daidtt = 'm' + f_divu = 'm' + f_dsnow = 'x' + f_dvidtd = 'md' + f_dvidtt = 'md' + f_dxt = .true. + f_dxu = .true. + f_dyt = .true. + f_dyu = .true. + f_evap = 'x' + f_evap_ai = 'm' + f_fcondtop_ai = 'm' + f_fcondtopn_ai = 'm' + f_fhocn = 'x' + f_fhocn_ai = 'm' + f_flat = 'x' + f_flat_ai = 'm' + f_flatn_ai = 'm' + f_flwdn = 'm' + f_flwup = 'x' + f_flwup_ai = 'm' + f_fmeltt_ai = 'm' + f_fmelttn_ai = 'm' + f_frazil = 'md' + f_fresh = 'x' + f_fresh_ai = 'm' + f_frz_onset = 'x' + f_frzmlt = 'md' + f_fsalt = 'm' + f_fsalt_ai = 'm' + f_fsens = 'x' + f_fsens_ai = 'm' + f_fsurf_ai = 'x' + f_fsurfn_ai = 'm' + f_fswabs = 'x' + f_fswabs_ai = 'm' + f_fswdn = 'm' + f_fswfac = 'm' + f_fswthru = 'x' + f_fswthru_ai = 'm' + f_fswup = 'm' + f_fy = 'x' + f_hi = 'md' + f_hisnap = 'x' + f_hs = 'md' + f_hte = .true. + f_htn = .true. + f_iage = 'm' + f_icepresent = 'm' + f_meltb = 'm' + f_meltl = 'm' + f_melts = 'm' + f_meltt = 'm' + f_mlt_onset = 'x' + f_ncat = .true. + f_qref = 'x' + f_rain = 'x' + f_rain_ai = 'm' + f_shear = 'm' + f_sice = 'm' + f_sig1 = 'x' + f_sig2 = 'x' + f_sinz = 'x' + f_snoice = 'md' + f_snow = 'x' + f_snow_ai = 'm' + f_sss = 'x' + f_sst = 'x' + f_strairx = 'm' + f_strairy = 'm' + f_strcorx = 'm' + f_strcory = 'm' + f_strength = 'm' + f_strintx = 'm' + f_strinty = 'm' + f_strocnx = 'm' + f_strocny = 'm' + f_strtltx = 'm' + f_strtlty = 'm' + f_tair = 'm' + f_tarea = .true. + f_tinz = 'x' + f_tmask = .true. + f_tref = 'x' + f_trsig = 'm' + f_tsfc = 'm' + f_tsnz = 'x' + f_uarea = .true. + f_uatm = 'x' + f_uocn = 'x' + f_uvel = 'md' + f_vatm = 'x' + f_vgrdb = .false. + f_vgrdi = .false. + f_vgrds = .false. + f_vicen = 'm' + f_vocn = 'x' + f_vvel = 'md' +/ + +&icefields_mechred_nml + f_alvl = 'm' + f_aparticn = 'x' + f_araftn = 'x' + f_ardg = 'm' + f_ardgn = 'x' + f_aredistn = 'x' + f_dardg1dt = 'x' + f_dardg1ndt = 'x' + f_dardg2dt = 'x' + f_dardg2ndt = 'x' + f_dvirdgdt = 'x' + f_dvirdgndt = 'x' + f_krdgn = 'x' + f_opening = 'm' + f_vlvl = 'm' + f_vraftn = 'x' + f_vrdg = 'm' + f_vrdgn = 'x' + f_vredistn = 'x' +/ + +&icefields_pond_nml + f_apeff = 'x' + f_apeff_ai = 'x' + f_apeffn = 'x' + f_apond = 'x' + f_apond_ai = 'x' + f_apondn = 'x' + f_hpond = 'x' + f_hpond_ai = 'x' + f_hpondn = 'x' + f_ipond = 'x' + f_ipond_ai = 'x' +/ + +&icefields_bgc_nml + f_aero = 'x' + f_bgc_am_ml = 'x' + f_bgc_am_sk = 'x' + f_bgc_c_sk = 'x' + f_bgc_chl_sk = 'x' + f_bgc_dms_sk = 'x' + f_bgc_dmsp_ml = 'x' + f_bgc_dmspd_sk = 'x' + f_bgc_dmspp_sk = 'x' + f_bgc_n_sk = 'x' + f_bgc_nit_ml = 'x' + f_bgc_nit_sk = 'x' + f_bgc_sil_ml = 'x' + f_bgc_sil_sk = 'x' + f_bphi = 'x' + f_btin = 'x' + f_faero_atm = 'x' + f_faero_ocn = 'x' + f_fbri = 'x' + f_fn = 'x' + f_fn_ai = 'x' + f_fnh = 'x' + f_fnh_ai = 'x' + f_fno = 'x' + f_fno_ai = 'x' + f_fsil = 'x' + f_fsil_ai = 'x' + f_grownet = 'x' + f_hbri = 'x' + f_ppnet = 'x' +/ + +&icefields_drag_nml + f_cdn_atm = 'x' + f_cdn_ocn = 'x' + f_drag = 'x' +/ diff --git a/ice/input_ice.nml b/ice/input_ice.nml new file mode 100644 index 0000000..d77f918 --- /dev/null +++ b/ice/input_ice.nml @@ -0,0 +1,29 @@ +&coupling_nml + chk_a2i_fields = .false. + chk_frzmlt_sst = .false. + chk_gfdl_roughness = .false. + chk_i2a_fields = .false. + chk_i2o_fields = .false. + chk_o2i_fields = .false. + cst_ocn_albedo = .false. + fields_from_atm = 'swfld_i', 'lwfld_i', 'rain_i', 'snow_i', 'press_i', + 'runof_i', 'tair_i', 'qair_i', 'uwnd_i', 'vwnd_i', + 'licalvf_i' + fields_from_ocn = 'sst_i', 'sss_i', 'ssu_i', 'ssv_i', 'sslx_i', 'ssly_i', + 'pfmice_i' + fields_to_ocn = 'strsu_io', 'strsv_io', 'rain_io', 'snow_io', 'stflx_io', + 'htflx_io', 'swflx_io', 'qflux_io', 'shflx_io', + 'lwflx_io', 'runof_io', 'press_io', 'aice_io', 'melt_io', + 'form_io', 'licefw_io', 'licefh_io' + gfdl_surface_flux = .true. + ice_fwflux = .true. + ice_pressure_on = .true. + limit_icemelt = .false. + meltlimit = -200.0 + ocn_albedo = 0.1 + pop_icediag = .true. + precip_factor = 1.0 + rotate_winds = .true. + use_ocnslope = .false. + use_umask = .false. +/ diff --git a/ice/input_ice_gfdl.nml b/ice/input_ice_gfdl.nml new file mode 100644 index 0000000..10395c4 --- /dev/null +++ b/ice/input_ice_gfdl.nml @@ -0,0 +1,25 @@ +&ocean_rough_nml + charnock = 0.032 + do_cap40 = .false. + do_highwind = .false. + rough_scheme = 'beljaars' + roughness_heat = 5.8e-05 + roughness_min = 1e-06 + roughness_moist = 5.8e-05 + roughness_mom = 5.8e-05 + zcoh1 = 0.0 + zcoq1 = 0.0 +/ + +&surface_flux_nml + alt_gustiness = .false. + gust_const = 1.0 + gust_min = 0.0 + ncar_ocean_flux = .true. + ncar_ocean_flux_orig = .false. + no_neg_q = .false. + old_dtaudv = .false. + raoult_sat_vap = .false. + use_mixing_ratio = .false. + use_virtual_temp = .true. +/ diff --git a/ice/input_ice_monin.nml b/ice/input_ice_monin.nml new file mode 100644 index 0000000..edc9c2d --- /dev/null +++ b/ice/input_ice_monin.nml @@ -0,0 +1,3 @@ +&monin_obukhov_nml + neutral = .true. +/ diff --git a/manifests/exe.yaml b/manifests/exe.yaml new file mode 100644 index 0000000..80ed3f5 --- /dev/null +++ b/manifests/exe.yaml @@ -0,0 +1,18 @@ +format: yamanifest +version: 1.0 +--- +work/atmosphere/yatm.exe: + fullpath: /g/data/vk83/apps/spack/0.20/release/linux-rocky8-x86_64/intel-19.0.5.281/libaccessom2-git.2023.10.26=2023.10.26-ltfg7jcn6t4cefotvj3kjnyu5nru26xo/bin/yatm.exe + hashes: + binhash: 4e8b4ef76e971c4af3b26cfac632e160 + md5: 5baa1d417fe6708fc30cbeaa57d82f96 +work/ice/cice_auscom_360x300_24x1_24p.exe: + fullpath: 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new file mode 100644 index 0000000..50a043b --- /dev/null +++ b/metadata.yaml @@ -0,0 +1,34 @@ +contact: Add your name here +email: Add your email address here +created: Add the date you started the experiment here (YYYY-MM-DD) +description: |- + 1 degree ACCESS-OM2 global model configuration under interannual forcing. + The configuration is based on that described in Kiss et al. (2020), + https://doi.org/10.5194/gmd-13-401-2020, but with many improvements. + Initial conditions are WOA13v2 potential temperature and practical salinity. + Run with JRA55-do v1.4.0 interannually-varying forcing with all solid runoff + converted to liquid runoff with no heat transfer. + Spin up starts 1 Jan 1958 and runs to 1 Jan 2019. +notes: |- + COSIMA request that users of this or other ACCESS-OM2 model code or output data: + (a) consider citing Kiss et al. (2020) [http://doi.org/10.5194/gmd-13-401-2020] + (b) include an acknowledgement such as the following: + "The authors thank the Consortium for Ocean-Sea Ice Modelling in Australia (COSIMA; http://www.cosima.org.au) + for making the ACCESS-OM2 suite of models available at https://github.com/COSIMA/access-om2. + Model runs were undertaken with the assistance of resources from the National Computational Infrastructure (NCI), + which is supported by the Australian Government." + (c) let COSIMA know of any publications which use these models or data so they can add them to their list: + https://scholar.google.com/citations?hl=en&user=inVqu_4AAAAJ +keywords: + - JRA55 + - access-om2 + - interannual + - global +realm: + - ocean + - seaIce +nominal_resolution: 100 km +reference: https://doi.org/10.5194/gmd-13-401-2020 +license: CC-BY-4.0 +model: access-om2 +url: https://github.com/ACCESS-NRI/access-om2-configs/tree/release-1deg_jra55_iaf diff --git a/namcouple b/namcouple new file mode 100644 index 0000000..2a44983 --- /dev/null +++ b/namcouple @@ -0,0 +1,307 @@ +# This is a typical input file for OASIS 3.0, using netCDF format +# for restart input files. Oasis reads this file at run-time. +# +# Any line beginning with # is ignored. Blank lines are not allowed. +# +# $SEQMODE +# This keyword concerns the coupling algorithm. Put here the maximum number +# of fields that have to be, at one particular coupling timestep, +# necessarily exchanged sequentially in a given order. +# 1 +# $END +######################################################################### + + $NFIELDS +# This is the total number of fields being exchanged. +### 11 fields atm -> ice +### 17 fields ice -> ocn +### 7 fields ocn -> ice + 35 + $END +######################################################################### +# $JOBNAME +# This is an acronym for this run. +# (3 characters) +# OIA +# $END +########################################################################## + $NBMODEL +# This gives you the number of models running in this experiment + +# their names (character*6, exactly!) + , in option, the maximum Fortran unit +# number used by each model; 1024 will be used if none are given. +# + 3 cicexx matmxx mom5xx + $END +########################################################################### + $RUNTIME +# This gives you the total simulated time for this run in seconds +# This is not used but needs to be >= to the timestep to satisfy error checking. +# See https://github.com/COSIMA/oasis3-mct/issues/3 + 864000 + $END +########################################################################### +# $INIDATE +# This is the initial date of the run. This is important only if +# FILLING analysis is used for a coupling field in the run. +# The format is YYYYMMDD such as 19910101 +# #Inidate +# $END +########################################################################### +# $MODINFO +# Indicates if a header is encapsulated within the field brick +# in binary restart files for all communication techniques, and +# for coupling field exchanges for PIPE, SIPC and GMEM. +# (YES or NOT) +# NOT +# $END +########################################################################### + $NLOGPRT +# Index of printing level in output file cplout: 0 = no printing +# 1 = main routines and field names when treated, 2 = complete output + 0 + $END +########################################################################### +# $CALTYPE +# Calendar type : 0 = 365 day calendar (no leap years) +# 1 = 365 day, or 366 days for leap years, calendar +# n (>1) = n day month calendar +# This is important only if FILLING analysis is used for a coupling +# field in the run. +# +# #Caltype +# $END +########################################################################### + $STRINGS +# +# The above variables are the general parameters for the experiment. +# Everything below has to do with the fields being exchanged. +# +############################################################################ +# --- note file cf_name_table.txt does not include all the coupling flds --- +# --- listed below. so the fld number (367 for swfld etc) may not point --- +# --- to the realistic 'longname' of the variable. (may modify this file --- +# --- to add more fields in the future.) +############################################################################ +# +# ATMOSPHERE --->>> ICE +# ----------------------- +########## +# Field 01 : swflx down +########## +swfld_ai swfld_i -1 -1 1 NA EXPORTED +NA NA +P 0 P 0 +# +MAPPING +../INPUT/rmp_jra55_cice_1st_conserve.nc dst +######### +# Field 02 : lwflx down +########## +lwfld_ai lwfld_i -1 -1 1 NA EXPORTED +NA NA +P 0 P 0 +# +MAPPING +../INPUT/rmp_jra55_cice_1st_conserve.nc dst +########## +# Field 03 : rainfall +########## +rain_ai rain_i -1 -1 1 NA EXPORTED +NA NA +P 0 P 0 +# +MAPPING +../INPUT/rmp_jra55_cice_1st_conserve.nc dst +########## +# Field 04 : snowfall +########## +snow_ai snow_i -1 -1 1 NA EXPORTED +NA NA +P 0 P 0 +# +MAPPING +../INPUT/rmp_jra55_cice_1st_conserve.nc dst +########## +# Field 05 : surface pressure +########## +press_ai press_i -1 -1 1 NA EXPORTED +NA NA +P 0 P 0 +# +MAPPING +../INPUT/rmp_jra55_cice_patch.nc dst +########## +# Field 06 : runoff. Runoff is passed on the destination grid. +########## +runof_ai runof_i -2 -1 0 NA IGNORED +NA NA +########## +# Field 07 : near surface (2m) air temp +########## +tair_ai tair_i -1 -1 1 NA EXPORTED +NA NA +P 0 P 0 +# +MAPPING +../INPUT/rmp_jra55_cice_patch.nc dst +########## +# Field 08 : 2m air humidity +########## +qair_ai qair_i -1 -1 1 NA EXPORTED +NA NA +P 0 P 0 +# +MAPPING +../INPUT/rmp_jra55_cice_patch.nc dst +########## +# Field 09 : 10m wind (u) +########## +uwnd_ai uwnd_i -1 -1 1 NA EXPORTED +NA NA +P 0 P 0 +# +MAPPING +../INPUT/rmp_jra55_cice_patch.nc dst +########## +# Field 10 : 10m wind (v) +########## +vwnd_ai vwnd_i -1 -1 1 NA EXPORTED +NA NA +P 0 P 0 +# +MAPPING +../INPUT/rmp_jra55_cice_patch.nc dst +########## +# Field 11 : land ice calving flux, like runoff it is passed on the destination grid +########## +licalvf_ai licalvf_i -1 -1 0 NA IGNORED +NA NA +############################################################################ +# +# ICE --->>> OCEAN +# ---------------- +########## +# Field 12 : ice-ocean interface stress (x-direction) +########## +strsu_io u_flux -1 -1 0 i2o.nc IGNORED +NA NA +########## +# Field 13 : ice-ocean interface stress (y-direction) +########## +strsv_io v_flux -1 -1 0 i2o.nc IGNORED +NA NA +########## +# Field 14 : freshwater flux +########## +rain_io lprec -1 -1 0 i2o.nc IGNORED +NA NA +########## +# Field 15 : freshwater flux +########## +snow_io fprec -1 -1 0 i2o.nc IGNORED +NA NA +########## +# Field 16 : salt flux (no ref no for saltflux yet!) +########## +stflx_io salt_flx -1 -1 0 i2o.nc IGNORED +NA NA +########## +# Field 17 : next heat flux (heatflux into ocean) +########## +htflx_io mh_flux -1 -1 0 i2o.nc IGNORED +NA NA +########## +# Field 18 : swflux penetrating through ice into ocean +######### +swflx_io sw_flux -1 -1 0 i2o.nc IGNORED +NA NA +########## +# Field 19 : latent heat flux +########## +qflux_io q_flux -1 -1 0 i2o.nc IGNORED +NA NA +######### +# Field 20 : Sensible heat flux +########## +shflx_io t_flux -1 -1 0 i2o.nc IGNORED +NA NA +########## +# Field 21 : LW radiation flux down +########## +lwflx_io lw_flux -1 -1 0 i2o.nc IGNORED +NA NA +########## +# Field 22 : runoff +########## +runof_io runof -1 -1 0 i2o.nc IGNORED +NA NA +########## +# Field 23 : surface pressure +########## +press_io p -1 -1 0 i2o.nc IGNORED +NA NA +########## +# Field 24 : ice concentration +########## +aice_io aice -1 -1 0 i2o.nc IGNORED +NA NA +########## +# Field 25 : ice melting waterflux +########## +melt_io wfimelt -1 -1 0 i2o.nc IGNORED +NA NA +########## +# Field 26 : ice forming eaterflux +########## +form_io wfiform -1 -1 0 i2o.nc IGNORED +NA NA +########## +# Field 27 : land ice waterflux +########## +licefw_io licefw -1 -1 0 i2o.nc IGNORED +NA NA +########## +# Field 28 : land ice heatflux +########## +licefh_io liceht -1 -1 0 i2o.nc IGNORED +NA NA +############################################################################ +# +# OCEAN --->>> ICE +# ---------------- +########## +# Field 29 : Sea surface temperature (Celsius in MOM4, Kelvin in MOM5) +########## +t_surf sst_i -1 -1 0 o2i.nc IGNORED +NA NA +########## +# Field 30 : Sea surface salinity (psu) +########## +s_surf sss_i -1 -1 0 o2i.nc IGNORED +NA NA +########## +# Field 31 : 'eastward' sea surface water velocity +########## +u_surf ssu_i -1 -1 0 o2i.nc IGNORED +NA NA +########## +# Field 32 : 'northward' sea surface water velocity +########## +v_surf ssv_i -1 -1 0 o2i.nc IGNORED +NA NA +########## +# Field 33 : frazil ice fromation energy (J/m^2) +########## +frazil pfmice_i -1 -1 0 o2i.nc IGNORED +NA NA +########## +# Field 34 : sea surface slope _x_ (m/m) +########## +dssldx sslx_i -1 -1 0 o2i.nc IGNORED +NA NA +########## +# Field 35 : sea surface slope _y_ (m/m) +########## +dssldy ssly_i -1 -1 0 o2i.nc IGNORED +NA NA + $END diff --git a/ocean/data_table b/ocean/data_table new file mode 100644 index 0000000..5c5e9b4 --- /dev/null +++ b/ocean/data_table @@ -0,0 +1,13 @@ +# format for data_table: +# gridname, fieldname_code, fieldname_file, filename, ongrid, factor +# If user wants to override fieldname_code with a const set fieldname_file = "" +# and factor = const +# B: in coupled mode, none of the below is required. +#B "OCN", "u_flux", "taux" , "INPUT/tau.nc",.false.,0.0 +#B "OCN", "v_flux", "tauy" , "INPUT/tau.nc",.false.,0.0 +#B "OCN", "sw_flux","sw_flux","INPUT/sw_flux.nc",.false.,0.0 +#B "OCN", "lw_flux","lw_flux","INPUT/lw_flux.nc",.false.,0.0 +#B "OCN", "lprec","pme","INPUT/pme_flux.nc",.false.,1.0 +#B "OCN", "t_flux","","",.false.,0.0 +#B "OCN", "q_flux","","",.false.,0.0 +#B "OCN", "p","","",.false.,0.0 diff --git a/ocean/diag_table b/ocean/diag_table new file mode 100644 index 0000000..0083b40 --- /dev/null +++ b/ocean/diag_table @@ -0,0 +1,392 @@ +ACCESS-OM2 +1900 1 1 0 0 0 + +######################################################################################################### +# # +# DO NOT EDIT! Instead, edit diag_table_source.yaml and run make_diag_table.py to re-generate this file # +# # +######################################################################################################### + + +# static 2d grid data + +"ocean-2d-area_t", -1, "months", 1, "days", "time" +"ocean_model", "area_t", "area_t", "ocean-2d-area_t", "all", "none", "none", 2 + +"ocean-2d-area_u", -1, "months", 1, "days", "time" +"ocean_model", "area_u", "area_u", "ocean-2d-area_u", "all", "none", "none", 2 + +"ocean-2d-drag_coeff", -1, "months", 1, "days", "time" +"ocean_model", "drag_coeff", "drag_coeff", "ocean-2d-drag_coeff", "all", "none", "none", 2 + +"ocean-2d-dxt", -1, "months", 1, "days", "time" +"ocean_model", "dxt", "dxt", "ocean-2d-dxt", "all", "none", "none", 2 + +"ocean-2d-dxu", -1, "months", 1, "days", "time" +"ocean_model", "dxu", "dxu", "ocean-2d-dxu", "all", "none", "none", 2 + +"ocean-2d-dyt", -1, "months", 1, "days", "time" +"ocean_model", "dyt", "dyt", "ocean-2d-dyt", "all", "none", "none", 2 + +"ocean-2d-dyu", -1, "months", 1, "days", "time" +"ocean_model", "dyu", "dyu", "ocean-2d-dyu", "all", "none", "none", 2 + +"ocean-2d-geolat_c", -1, "months", 1, "days", "time" +"ocean_model", "geolat_c", "geolat_c", "ocean-2d-geolat_c", "all", "none", "none", 2 + +"ocean-2d-geolat_t", -1, "months", 1, "days", "time" +"ocean_model", "geolat_t", "geolat_t", "ocean-2d-geolat_t", "all", "none", "none", 2 + +"ocean-2d-geolon_c", -1, "months", 1, "days", "time" +"ocean_model", "geolon_c", "geolon_c", "ocean-2d-geolon_c", "all", "none", "none", 2 + +"ocean-2d-geolon_t", -1, "months", 1, "days", "time" +"ocean_model", "geolon_t", "geolon_t", "ocean-2d-geolon_t", "all", "none", "none", 2 + +"ocean-2d-ht", -1, "months", 1, "days", "time" +"ocean_model", "ht", "ht", "ocean-2d-ht", "all", "none", "none", 2 + +"ocean-2d-hu", -1, "months", 1, "days", "time" +"ocean_model", "hu", "hu", "ocean-2d-hu", "all", "none", "none", 2 + +"ocean-2d-kmt", -1, "months", 1, "days", "time" +"ocean_model", "kmt", "kmt", "ocean-2d-kmt", "all", "none", "none", 2 + +"ocean-2d-kmu", -1, "months", 1, "days", "time" +"ocean_model", "kmu", "kmu", "ocean-2d-kmu", "all", "none", "none", 2 + + +# monthly 3d fields + +"ocean-3d-age_global-1-monthly-mean-ym%4yr%2mo", 1, "months", 1, "days", "time", 1, "years" +"ocean_model", "age_global", "age_global", "ocean-3d-age_global-1-monthly-mean-ym%4yr%2mo", "all", "average", "none", 2 + +"ocean-3d-buoyfreq2_wt-1-monthly-mean-ym%4yr%2mo", 1, "months", 1, "days", "time", 1, "years" +"ocean_model", "buoyfreq2_wt", "buoyfreq2_wt", "ocean-3d-buoyfreq2_wt-1-monthly-mean-ym%4yr%2mo", "all", "average", "none", 2 + +"ocean-3d-diff_cbt_t-1-monthly-mean-ym%4yr%2mo", 1, "months", 1, "days", "time", 1, "years" +"ocean_model", "diff_cbt_t", "diff_cbt_t", "ocean-3d-diff_cbt_t-1-monthly-mean-ym%4yr%2mo", "all", "average", "none", 2 + +"ocean-3d-dzt-1-monthly-mean-ym%4yr%2mo", 1, "months", 1, "days", "time", 1, "years" +"ocean_model", "dzt", "dzt", "ocean-3d-dzt-1-monthly-mean-ym%4yr%2mo", "all", "average", "none", 2 + +"ocean-3d-pot_rho_0-1-monthly-mean-ym%4yr%2mo", 1, "months", 1, "days", "time", 1, "years" +"ocean_model", "pot_rho_0", "pot_rho_0", "ocean-3d-pot_rho_0-1-monthly-mean-ym%4yr%2mo", "all", "average", "none", 2 + +"ocean-3d-pot_rho_2-1-monthly-mean-ym%4yr%2mo", 1, "months", 1, "days", "time", 1, "years" +"ocean_model", "pot_rho_2", "pot_rho_2", "ocean-3d-pot_rho_2-1-monthly-mean-ym%4yr%2mo", "all", "average", "none", 2 + +"ocean-3d-pot_temp-1-monthly-mean-ym%4yr%2mo", 1, "months", 1, "days", "time", 1, "years" +"ocean_model", "pot_temp", "pot_temp", "ocean-3d-pot_temp-1-monthly-mean-ym%4yr%2mo", "all", "average", "none", 2 + +"ocean-3d-salt-1-monthly-mean-ym%4yr%2mo", 1, "months", 1, "days", "time", 1, "years" +"ocean_model", "salt", "salt", "ocean-3d-salt-1-monthly-mean-ym%4yr%2mo", "all", "average", "none", 2 + +"ocean-3d-temp_xflux_adv-1-monthly-mean-ym%4yr%2mo", 1, "months", 1, "days", "time", 1, "years" +"ocean_model", "temp_xflux_adv", "temp_xflux_adv", "ocean-3d-temp_xflux_adv-1-monthly-mean-ym%4yr%2mo", "all", "average", "none", 2 + +"ocean-3d-temp_yflux_adv-1-monthly-mean-ym%4yr%2mo", 1, "months", 1, "days", "time", 1, "years" +"ocean_model", "temp_yflux_adv", "temp_yflux_adv", "ocean-3d-temp_yflux_adv-1-monthly-mean-ym%4yr%2mo", "all", "average", "none", 2 + +"ocean-3d-temp-1-monthly-mean-ym%4yr%2mo", 1, "months", 1, "days", "time", 1, "years" +"ocean_model", "temp", "temp", "ocean-3d-temp-1-monthly-mean-ym%4yr%2mo", "all", "average", "none", 2 + +"ocean-3d-tx_trans-1-monthly-mean-ym%4yr%2mo", 1, "months", 1, "days", "time", 1, "years" +"ocean_model", "tx_trans", "tx_trans", "ocean-3d-tx_trans-1-monthly-mean-ym%4yr%2mo", "all", "average", "none", 2 + +"ocean-3d-ty_trans_gm-1-monthly-mean-ym%4yr%2mo", 1, "months", 1, "days", "time", 1, "years" +"ocean_model", "ty_trans_gm", "ty_trans_gm", "ocean-3d-ty_trans_gm-1-monthly-mean-ym%4yr%2mo", "all", "average", "none", 2 + +"ocean-3d-ty_trans_nrho_submeso-1-monthly-mean-ym%4yr%2mo", 1, "months", 1, "days", "time", 1, "years" +"ocean_model", "ty_trans_nrho_submeso", "ty_trans_nrho_submeso", "ocean-3d-ty_trans_nrho_submeso-1-monthly-mean-ym%4yr%2mo", "all", "average", "none", 2 + +"ocean-3d-ty_trans_rho_gm-1-monthly-mean-ym%4yr%2mo", 1, "months", 1, "days", "time", 1, "years" +"ocean_model", "ty_trans_rho_gm", "ty_trans_rho_gm", "ocean-3d-ty_trans_rho_gm-1-monthly-mean-ym%4yr%2mo", "all", "average", "none", 2 + +"ocean-3d-ty_trans_rho-1-monthly-mean-ym%4yr%2mo", 1, "months", 1, "days", "time", 1, "years" +"ocean_model", "ty_trans_rho", "ty_trans_rho", "ocean-3d-ty_trans_rho-1-monthly-mean-ym%4yr%2mo", "all", "average", "none", 2 + +"ocean-3d-ty_trans_submeso-1-monthly-mean-ym%4yr%2mo", 1, "months", 1, "days", "time", 1, "years" +"ocean_model", "ty_trans_submeso", "ty_trans_submeso", "ocean-3d-ty_trans_submeso-1-monthly-mean-ym%4yr%2mo", "all", "average", "none", 2 + +"ocean-3d-ty_trans-1-monthly-mean-ym%4yr%2mo", 1, "months", 1, "days", "time", 1, "years" +"ocean_model", "ty_trans", "ty_trans", "ocean-3d-ty_trans-1-monthly-mean-ym%4yr%2mo", "all", "average", "none", 2 + +"ocean-3d-u-1-monthly-mean-ym%4yr%2mo", 1, "months", 1, "days", "time", 1, "years" +"ocean_model", "u", "u", "ocean-3d-u-1-monthly-mean-ym%4yr%2mo", "all", "average", "none", 2 + +"ocean-3d-v-1-monthly-mean-ym%4yr%2mo", 1, "months", 1, "days", "time", 1, "years" +"ocean_model", "v", "v", "ocean-3d-v-1-monthly-mean-ym%4yr%2mo", "all", "average", "none", 2 + +"ocean-3d-vert_pv-1-monthly-mean-ym%4yr%2mo", 1, "months", 1, "days", "time", 1, "years" +"ocean_model", "vert_pv", "vert_pv", "ocean-3d-vert_pv-1-monthly-mean-ym%4yr%2mo", "all", "average", "none", 2 + +"ocean-3d-wt-1-monthly-mean-ym%4yr%2mo", 1, "months", 1, "days", "time", 1, "years" +"ocean_model", "wt", "wt", "ocean-3d-wt-1-monthly-mean-ym%4yr%2mo", "all", "average", "none", 2 + + +# monthly 3d squared fields + +"ocean-3d-u-1-monthly-pow02-ym%4yr%2mo", 1, "months", 1, "days", "time", 1, "years" +"ocean_model", "u", "u", "ocean-3d-u-1-monthly-pow02-ym%4yr%2mo", "all", "pow02", "none", 2 + +"ocean-3d-v-1-monthly-pow02-ym%4yr%2mo", 1, "months", 1, "days", "time", 1, "years" +"ocean_model", "v", "v", "ocean-3d-v-1-monthly-pow02-ym%4yr%2mo", "all", "pow02", "none", 2 + + +# monthly 2d fields + +"ocean-2d-agm-1-monthly-mean-ym%4yr%2mo", 1, "months", 1, "days", "time", 1, "years" +"ocean_model", "agm", "agm", "ocean-2d-agm-1-monthly-mean-ym%4yr%2mo", "all", "average", "none", 2 + +"ocean-2d-aredi-1-monthly-mean-ym%4yr%2mo", 1, "months", 1, "days", "time", 1, "years" +"ocean_model", "aredi", "aredi", "ocean-2d-aredi-1-monthly-mean-ym%4yr%2mo", "all", "average", "none", 2 + +"ocean-2d-bmf_u-1-monthly-mean-ym%4yr%2mo", 1, "months", 1, "days", "time", 1, "years" +"ocean_model", "bmf_u", "bmf_u", "ocean-2d-bmf_u-1-monthly-mean-ym%4yr%2mo", "all", "average", "none", 2 + +"ocean-2d-bmf_v-1-monthly-mean-ym%4yr%2mo", 1, "months", 1, "days", "time", 1, "years" +"ocean_model", "bmf_v", "bmf_v", "ocean-2d-bmf_v-1-monthly-mean-ym%4yr%2mo", "all", "average", "none", 2 + +"ocean-2d-ekman_we-1-monthly-mean-ym%4yr%2mo", 1, "months", 1, "days", "time", 1, "years" +"ocean_model", "ekman_we", "ekman_we", "ocean-2d-ekman_we-1-monthly-mean-ym%4yr%2mo", "all", "average", "none", 2 + +"ocean-2d-eta_nonbouss-1-monthly-mean-ym%4yr%2mo", 1, "months", 1, "days", "time", 1, "years" +"ocean_model", "eta_nonbouss", "eta_nonbouss", "ocean-2d-eta_nonbouss-1-monthly-mean-ym%4yr%2mo", "all", "average", "none", 2 + +"ocean-2d-evap_heat-1-monthly-mean-ym%4yr%2mo", 1, "months", 1, "days", "time", 1, "years" +"ocean_model", "evap_heat", "evap_heat", "ocean-2d-evap_heat-1-monthly-mean-ym%4yr%2mo", "all", "average", "none", 2 + +"ocean-2d-evap-1-monthly-mean-ym%4yr%2mo", 1, "months", 1, "days", "time", 1, "years" +"ocean_model", "evap", "evap", "ocean-2d-evap-1-monthly-mean-ym%4yr%2mo", "all", "average", "none", 2 + +"ocean-2d-fprec_melt_heat-1-monthly-mean-ym%4yr%2mo", 1, "months", 1, "days", "time", 1, "years" +"ocean_model", "fprec_melt_heat", "fprec_melt_heat", "ocean-2d-fprec_melt_heat-1-monthly-mean-ym%4yr%2mo", "all", "average", "none", 2 + +"ocean-2d-fprec-1-monthly-mean-ym%4yr%2mo", 1, "months", 1, "days", "time", 1, "years" +"ocean_model", "fprec", "fprec", "ocean-2d-fprec-1-monthly-mean-ym%4yr%2mo", "all", "average", "none", 2 + +"ocean-2d-frazil_3d_int_z-1-monthly-mean-ym%4yr%2mo", 1, "months", 1, "days", "time", 1, "years" +"ocean_model", "frazil_3d_int_z", "frazil_3d_int_z", "ocean-2d-frazil_3d_int_z-1-monthly-mean-ym%4yr%2mo", "all", "average", "none", 2 + +"ocean-2d-lprec-1-monthly-mean-ym%4yr%2mo", 1, "months", 1, "days", "time", 1, "years" +"ocean_model", "lprec", "lprec", "ocean-2d-lprec-1-monthly-mean-ym%4yr%2mo", "all", "average", "none", 2 + +"ocean-2d-lw_heat-1-monthly-mean-ym%4yr%2mo", 1, "months", 1, "days", "time", 1, "years" +"ocean_model", "lw_heat", "lw_heat", "ocean-2d-lw_heat-1-monthly-mean-ym%4yr%2mo", "all", "average", "none", 2 + +"ocean-2d-melt-1-monthly-mean-ym%4yr%2mo", 1, "months", 1, "days", "time", 1, "years" +"ocean_model", "melt", "melt", "ocean-2d-melt-1-monthly-mean-ym%4yr%2mo", "all", "average", "none", 2 + +"ocean-2d-mh_flux-1-monthly-mean-ym%4yr%2mo", 1, "months", 1, "days", "time", 1, "years" +"ocean_model", "mh_flux", "mh_flux", "ocean-2d-mh_flux-1-monthly-mean-ym%4yr%2mo", "all", "average", "none", 2 + +"ocean-2d-mld-1-monthly-mean-ym%4yr%2mo", 1, "months", 1, "days", "time", 1, "years" +"ocean_model", "mld", "mld", "ocean-2d-mld-1-monthly-mean-ym%4yr%2mo", "all", "average", "none", 2 + +"ocean-2d-net_sfc_heating-1-monthly-mean-ym%4yr%2mo", 1, "months", 1, "days", "time", 1, "years" +"ocean_model", "net_sfc_heating", "net_sfc_heating", "ocean-2d-net_sfc_heating-1-monthly-mean-ym%4yr%2mo", "all", "average", "none", 2 + +"ocean-2d-pbot_t-1-monthly-mean-ym%4yr%2mo", 1, "months", 1, "days", "time", 1, "years" +"ocean_model", "pbot_t", "pbot_t", "ocean-2d-pbot_t-1-monthly-mean-ym%4yr%2mo", "all", "average", "none", 2 + +"ocean-2d-pme_net-1-monthly-mean-ym%4yr%2mo", 1, "months", 1, "days", "time", 1, "years" +"ocean_model", "pme_net", "pme_net", "ocean-2d-pme_net-1-monthly-mean-ym%4yr%2mo", "all", "average", "none", 2 + +"ocean-2d-pme_river-1-monthly-mean-ym%4yr%2mo", 1, "months", 1, "days", "time", 1, "years" +"ocean_model", "pme_river", "pme_river", "ocean-2d-pme_river-1-monthly-mean-ym%4yr%2mo", "all", "average", "none", 2 + +"ocean-2d-river-1-monthly-mean-ym%4yr%2mo", 1, "months", 1, "days", "time", 1, "years" +"ocean_model", "river", "river", "ocean-2d-river-1-monthly-mean-ym%4yr%2mo", "all", "average", "none", 2 + +"ocean-2d-runoff-1-monthly-mean-ym%4yr%2mo", 1, "months", 1, "days", "time", 1, "years" +"ocean_model", "runoff", "runoff", "ocean-2d-runoff-1-monthly-mean-ym%4yr%2mo", "all", "average", "none", 2 + +"ocean-2d-sea_level_sq-1-monthly-mean-ym%4yr%2mo", 1, "months", 1, "days", "time", 1, "years" +"ocean_model", "sea_level_sq", "sea_level_sq", "ocean-2d-sea_level_sq-1-monthly-mean-ym%4yr%2mo", "all", "average", "none", 2 + +"ocean-2d-sea_level-1-monthly-mean-ym%4yr%2mo", 1, "months", 1, "days", "time", 1, "years" +"ocean_model", "sea_level", "sea_level", "ocean-2d-sea_level-1-monthly-mean-ym%4yr%2mo", "all", "average", "none", 2 + +"ocean-2d-sens_heat-1-monthly-mean-ym%4yr%2mo", 1, "months", 1, "days", "time", 1, "years" +"ocean_model", "sens_heat", "sens_heat", "ocean-2d-sens_heat-1-monthly-mean-ym%4yr%2mo", "all", "average", "none", 2 + +"ocean-2d-sfc_hflux_coupler-1-monthly-mean-ym%4yr%2mo", 1, "months", 1, "days", "time", 1, "years" +"ocean_model", "sfc_hflux_coupler", "sfc_hflux_coupler", "ocean-2d-sfc_hflux_coupler-1-monthly-mean-ym%4yr%2mo", "all", "average", "none", 2 + +"ocean-2d-sfc_hflux_from_runoff-1-monthly-mean-ym%4yr%2mo", 1, "months", 1, "days", "time", 1, "years" +"ocean_model", "sfc_hflux_from_runoff", "sfc_hflux_from_runoff", "ocean-2d-sfc_hflux_from_runoff-1-monthly-mean-ym%4yr%2mo", "all", "average", "none", 2 + +"ocean-2d-sfc_hflux_pme-1-monthly-mean-ym%4yr%2mo", 1, "months", 1, "days", "time", 1, "years" +"ocean_model", "sfc_hflux_pme", "sfc_hflux_pme", "ocean-2d-sfc_hflux_pme-1-monthly-mean-ym%4yr%2mo", "all", "average", "none", 2 + +"ocean-2d-sfc_salt_flux_coupler-1-monthly-mean-ym%4yr%2mo", 1, "months", 1, "days", "time", 1, "years" +"ocean_model", "sfc_salt_flux_coupler", "sfc_salt_flux_coupler", "ocean-2d-sfc_salt_flux_coupler-1-monthly-mean-ym%4yr%2mo", "all", "average", "none", 2 + +"ocean-2d-sfc_salt_flux_ice-1-monthly-mean-ym%4yr%2mo", 1, "months", 1, "days", "time", 1, "years" +"ocean_model", "sfc_salt_flux_ice", "sfc_salt_flux_ice", "ocean-2d-sfc_salt_flux_ice-1-monthly-mean-ym%4yr%2mo", "all", "average", "none", 2 + +"ocean-2d-sfc_salt_flux_restore-1-monthly-mean-ym%4yr%2mo", 1, "months", 1, "days", "time", 1, "years" +"ocean_model", "sfc_salt_flux_restore", "sfc_salt_flux_restore", "ocean-2d-sfc_salt_flux_restore-1-monthly-mean-ym%4yr%2mo", "all", "average", "none", 2 + +"ocean-2d-surface_pot_temp-1-monthly-mean-ym%4yr%2mo", 1, "months", 1, "days", "time", 1, "years" +"ocean_model", "surface_pot_temp", "surface_pot_temp", "ocean-2d-surface_pot_temp-1-monthly-mean-ym%4yr%2mo", "all", "average", "none", 2 + +"ocean-2d-surface_salt-1-monthly-mean-ym%4yr%2mo", 1, "months", 1, "days", "time", 1, "years" +"ocean_model", "surface_salt", "surface_salt", "ocean-2d-surface_salt-1-monthly-mean-ym%4yr%2mo", "all", "average", "none", 2 + +"ocean-2d-swflx-1-monthly-mean-ym%4yr%2mo", 1, "months", 1, "days", "time", 1, "years" +"ocean_model", "swflx", "swflx", "ocean-2d-swflx-1-monthly-mean-ym%4yr%2mo", "all", "average", "none", 2 + +"ocean-2d-tau_x-1-monthly-mean-ym%4yr%2mo", 1, "months", 1, "days", "time", 1, "years" +"ocean_model", "tau_x", "tau_x", "ocean-2d-tau_x-1-monthly-mean-ym%4yr%2mo", "all", "average", "none", 2 + +"ocean-2d-tau_y-1-monthly-mean-ym%4yr%2mo", 1, "months", 1, "days", "time", 1, "years" +"ocean_model", "tau_y", "tau_y", "ocean-2d-tau_y-1-monthly-mean-ym%4yr%2mo", "all", "average", "none", 2 + +"ocean-2d-temp_int_rhodz-1-monthly-mean-ym%4yr%2mo", 1, "months", 1, "days", "time", 1, "years" +"ocean_model", "temp_int_rhodz", "temp_int_rhodz", "ocean-2d-temp_int_rhodz-1-monthly-mean-ym%4yr%2mo", "all", "average", "none", 2 + +"ocean-2d-temp_xflux_adv_int_z-1-monthly-mean-ym%4yr%2mo", 1, "months", 1, "days", "time", 1, "years" +"ocean_model", "temp_xflux_adv_int_z", "temp_xflux_adv_int_z", "ocean-2d-temp_xflux_adv_int_z-1-monthly-mean-ym%4yr%2mo", "all", "average", "none", 2 + +"ocean-2d-temp_xflux_gm_int_z-1-monthly-mean-ym%4yr%2mo", 1, "months", 1, "days", "time", 1, "years" +"ocean_model", "temp_xflux_gm_int_z", "temp_xflux_gm_int_z", "ocean-2d-temp_xflux_gm_int_z-1-monthly-mean-ym%4yr%2mo", "all", "average", "none", 2 + +"ocean-2d-temp_xflux_ndiffuse_int_z-1-monthly-mean-ym%4yr%2mo", 1, "months", 1, "days", "time", 1, "years" +"ocean_model", "temp_xflux_ndiffuse_int_z", "temp_xflux_ndiffuse_int_z", "ocean-2d-temp_xflux_ndiffuse_int_z-1-monthly-mean-ym%4yr%2mo", "all", "average", "none", 2 + +"ocean-2d-temp_xflux_submeso_int_z-1-monthly-mean-ym%4yr%2mo", 1, "months", 1, "days", "time", 1, "years" +"ocean_model", "temp_xflux_submeso_int_z", "temp_xflux_submeso_int_z", "ocean-2d-temp_xflux_submeso_int_z-1-monthly-mean-ym%4yr%2mo", "all", "average", "none", 2 + +"ocean-2d-temp_yflux_adv_int_z-1-monthly-mean-ym%4yr%2mo", 1, "months", 1, "days", "time", 1, "years" +"ocean_model", "temp_yflux_adv_int_z", "temp_yflux_adv_int_z", "ocean-2d-temp_yflux_adv_int_z-1-monthly-mean-ym%4yr%2mo", "all", "average", "none", 2 + +"ocean-2d-temp_yflux_gm_int_z-1-monthly-mean-ym%4yr%2mo", 1, "months", 1, "days", "time", 1, "years" +"ocean_model", "temp_yflux_gm_int_z", "temp_yflux_gm_int_z", "ocean-2d-temp_yflux_gm_int_z-1-monthly-mean-ym%4yr%2mo", "all", "average", "none", 2 + +"ocean-2d-temp_yflux_ndiffuse_int_z-1-monthly-mean-ym%4yr%2mo", 1, "months", 1, "days", "time", 1, "years" +"ocean_model", "temp_yflux_ndiffuse_int_z", "temp_yflux_ndiffuse_int_z", "ocean-2d-temp_yflux_ndiffuse_int_z-1-monthly-mean-ym%4yr%2mo", "all", "average", "none", 2 + +"ocean-2d-temp_yflux_submeso_int_z-1-monthly-mean-ym%4yr%2mo", 1, "months", 1, "days", "time", 1, "years" +"ocean_model", "temp_yflux_submeso_int_z", "temp_yflux_submeso_int_z", "ocean-2d-temp_yflux_submeso_int_z-1-monthly-mean-ym%4yr%2mo", "all", "average", "none", 2 + +"ocean-2d-tx_trans_int_z-1-monthly-mean-ym%4yr%2mo", 1, "months", 1, "days", "time", 1, "years" +"ocean_model", "tx_trans_int_z", "tx_trans_int_z", "ocean-2d-tx_trans_int_z-1-monthly-mean-ym%4yr%2mo", "all", "average", "none", 2 + +"ocean-2d-ty_trans_int_z-1-monthly-mean-ym%4yr%2mo", 1, "months", 1, "days", "time", 1, "years" +"ocean_model", "ty_trans_int_z", "ty_trans_int_z", "ocean-2d-ty_trans_int_z-1-monthly-mean-ym%4yr%2mo", "all", "average", "none", 2 + +"ocean-2d-wfiform-1-monthly-mean-ym%4yr%2mo", 1, "months", 1, "days", "time", 1, "years" +"ocean_model", "wfiform", "wfiform", "ocean-2d-wfiform-1-monthly-mean-ym%4yr%2mo", "all", "average", "none", 2 + +"ocean-2d-wfimelt-1-monthly-mean-ym%4yr%2mo", 1, "months", 1, "days", "time", 1, "years" +"ocean_model", "wfimelt", "wfimelt", "ocean-2d-wfimelt-1-monthly-mean-ym%4yr%2mo", "all", "average", "none", 2 + + +# monthly 2d fields with different reduction methods + +"ocean-2d-mld-1-monthly-max-ym%4yr%2mo", 1, "months", 1, "days", "time", 1, "years" +"ocean_model", "mld", "mld", "ocean-2d-mld-1-monthly-max-ym%4yr%2mo", "all", "max", "none", 2 + +"ocean-2d-surface_pot_temp-1-monthly-min-ym%4yr%2mo", 1, "months", 1, "days", "time", 1, "years" +"ocean_model", "surface_pot_temp", "surface_pot_temp", "ocean-2d-surface_pot_temp-1-monthly-min-ym%4yr%2mo", "all", "min", "none", 2 + + +# daily 2d fields + +"ocean-2d-bottom_temp-1-daily-mean-ym%4yr%2mo", 1, "days", 1, "days", "time", 1, "years" +"ocean_model", "bottom_temp", "bottom_temp", "ocean-2d-bottom_temp-1-daily-mean-ym%4yr%2mo", "all", "average", "none", 2 + +"ocean-2d-frazil_3d_int_z-1-daily-mean-ym%4yr%2mo", 1, "days", 1, "days", "time", 1, "years" +"ocean_model", "frazil_3d_int_z", "frazil_3d_int_z", "ocean-2d-frazil_3d_int_z-1-daily-mean-ym%4yr%2mo", "all", "average", "none", 2 + +"ocean-2d-mld-1-daily-mean-ym%4yr%2mo", 1, "days", 1, "days", "time", 1, "years" +"ocean_model", "mld", "mld", "ocean-2d-mld-1-daily-mean-ym%4yr%2mo", "all", "average", "none", 2 + +"ocean-2d-pme_river-1-daily-mean-ym%4yr%2mo", 1, "days", 1, "days", "time", 1, "years" +"ocean_model", "pme_river", "pme_river", "ocean-2d-pme_river-1-daily-mean-ym%4yr%2mo", "all", "average", "none", 2 + +"ocean-2d-sea_level-1-daily-mean-ym%4yr%2mo", 1, "days", 1, "days", "time", 1, "years" +"ocean_model", "sea_level", "sea_level", "ocean-2d-sea_level-1-daily-mean-ym%4yr%2mo", "all", "average", "none", 2 + +"ocean-2d-sfc_hflux_coupler-1-daily-mean-ym%4yr%2mo", 1, "days", 1, "days", "time", 1, "years" +"ocean_model", "sfc_hflux_coupler", "sfc_hflux_coupler", "ocean-2d-sfc_hflux_coupler-1-daily-mean-ym%4yr%2mo", "all", "average", "none", 2 + +"ocean-2d-sfc_hflux_from_runoff-1-daily-mean-ym%4yr%2mo", 1, "days", 1, "days", "time", 1, "years" +"ocean_model", "sfc_hflux_from_runoff", "sfc_hflux_from_runoff", "ocean-2d-sfc_hflux_from_runoff-1-daily-mean-ym%4yr%2mo", "all", "average", "none", 2 + +"ocean-2d-sfc_hflux_pme-1-daily-mean-ym%4yr%2mo", 1, "days", 1, "days", "time", 1, "years" +"ocean_model", "sfc_hflux_pme", "sfc_hflux_pme", "ocean-2d-sfc_hflux_pme-1-daily-mean-ym%4yr%2mo", "all", "average", "none", 2 + +"ocean-2d-surface_pot_temp-1-daily-mean-ym%4yr%2mo", 1, "days", 1, "days", "time", 1, "years" +"ocean_model", "surface_pot_temp", "surface_pot_temp", "ocean-2d-surface_pot_temp-1-daily-mean-ym%4yr%2mo", "all", "average", "none", 2 + +"ocean-2d-surface_salt-1-daily-mean-ym%4yr%2mo", 1, "days", 1, "days", "time", 1, "years" +"ocean_model", "surface_salt", "surface_salt", "ocean-2d-surface_salt-1-daily-mean-ym%4yr%2mo", "all", "average", "none", 2 + +"ocean-2d-usurf-1-daily-mean-ym%4yr%2mo", 1, "days", 1, "days", "time", 1, "years" +"ocean_model", "usurf", "usurf", "ocean-2d-usurf-1-daily-mean-ym%4yr%2mo", "all", "average", "none", 2 + +"ocean-2d-vsurf-1-daily-mean-ym%4yr%2mo", 1, "days", 1, "days", "time", 1, "years" +"ocean_model", "vsurf", "vsurf", "ocean-2d-vsurf-1-daily-mean-ym%4yr%2mo", "all", "average", "none", 2 + + +# daily 2d maximum fields + +"ocean-2d-bottom_temp-1-daily-max-ym%4yr%2mo", 1, "days", 1, "days", "time", 1, "years" +"ocean_model", "bottom_temp", "bottom_temp", "ocean-2d-bottom_temp-1-daily-max-ym%4yr%2mo", "all", "max", "none", 2 + +"ocean-2d-sea_level-1-daily-max-ym%4yr%2mo", 1, "days", 1, "days", "time", 1, "years" +"ocean_model", "sea_level", "sea_level", "ocean-2d-sea_level-1-daily-max-ym%4yr%2mo", "all", "max", "none", 2 + +"ocean-2d-surface_pot_temp-1-daily-max-ym%4yr%2mo", 1, "days", 1, "days", "time", 1, "years" +"ocean_model", "surface_pot_temp", "surface_pot_temp", "ocean-2d-surface_pot_temp-1-daily-max-ym%4yr%2mo", "all", "max", "none", 2 + + +# daily 2d minimum fields + +"ocean-2d-surface_pot_temp-1-daily-min-ym%4yr%2mo", 1, "days", 1, "days", "time", 1, "years" +"ocean_model", "surface_pot_temp", "surface_pot_temp", "ocean-2d-surface_pot_temp-1-daily-min-ym%4yr%2mo", "all", "min", "none", 2 + + +# daily scalar snapshots + +"ocean-scalar-1-daily-ym%4yr%2mo", 1, "days", 1, "days", "time", 1, "years" +"ocean_model", "eta_global", "eta_global", "ocean-scalar-1-daily-ym%4yr%2mo", "all", "none", "none", 1 +"ocean_model", "ke_tot", "ke_tot", "ocean-scalar-1-daily-ym%4yr%2mo", "all", "none", "none", 1 +"ocean_model", "pe_tot", "pe_tot", "ocean-scalar-1-daily-ym%4yr%2mo", "all", "none", "none", 1 +"ocean_model", "rhoave", "rhoave", "ocean-scalar-1-daily-ym%4yr%2mo", "all", "none", "none", 1 +"ocean_model", "salt_global_ave", "salt_global_ave", "ocean-scalar-1-daily-ym%4yr%2mo", "all", "none", "none", 1 +"ocean_model", "salt_surface_ave", "salt_surface_ave", "ocean-scalar-1-daily-ym%4yr%2mo", "all", "none", "none", 1 +"ocean_model", "temp_global_ave", "temp_global_ave", "ocean-scalar-1-daily-ym%4yr%2mo", "all", "none", "none", 1 +"ocean_model", "temp_surface_ave", "temp_surface_ave", "ocean-scalar-1-daily-ym%4yr%2mo", "all", "none", "none", 1 +"ocean_model", "total_net_sfc_heating", "total_net_sfc_heating", "ocean-scalar-1-daily-ym%4yr%2mo", "all", "none", "none", 1 +"ocean_model", "total_ocean_evap_heat", "total_ocean_evap_heat", "ocean-scalar-1-daily-ym%4yr%2mo", "all", "none", "none", 1 +"ocean_model", "total_ocean_evap", "total_ocean_evap", "ocean-scalar-1-daily-ym%4yr%2mo", "all", "none", "none", 1 +"ocean_model", "total_ocean_fprec_melt_heat", "total_ocean_fprec_melt_heat", "ocean-scalar-1-daily-ym%4yr%2mo", "all", "none", "none", 1 +"ocean_model", "total_ocean_fprec", "total_ocean_fprec", "ocean-scalar-1-daily-ym%4yr%2mo", "all", "none", "none", 1 +"ocean_model", "total_ocean_heat", "total_ocean_heat", "ocean-scalar-1-daily-ym%4yr%2mo", "all", "none", "none", 1 +"ocean_model", "total_ocean_hflux_coupler", "total_ocean_hflux_coupler", "ocean-scalar-1-daily-ym%4yr%2mo", "all", "none", "none", 1 +"ocean_model", "total_ocean_hflux_evap", "total_ocean_hflux_evap", "ocean-scalar-1-daily-ym%4yr%2mo", "all", "none", "none", 1 +"ocean_model", "total_ocean_hflux_prec", "total_ocean_hflux_prec", "ocean-scalar-1-daily-ym%4yr%2mo", "all", "none", "none", 1 +"ocean_model", "total_ocean_lprec", "total_ocean_lprec", "ocean-scalar-1-daily-ym%4yr%2mo", "all", "none", "none", 1 +"ocean_model", "total_ocean_lw_heat", "total_ocean_lw_heat", "ocean-scalar-1-daily-ym%4yr%2mo", "all", "none", "none", 1 +"ocean_model", "total_ocean_melt", "total_ocean_melt", "ocean-scalar-1-daily-ym%4yr%2mo", "all", "none", "none", 1 +"ocean_model", "total_ocean_mh_flux", "total_ocean_mh_flux", "ocean-scalar-1-daily-ym%4yr%2mo", "all", "none", "none", 1 +"ocean_model", "total_ocean_pme_river", "total_ocean_pme_river", "ocean-scalar-1-daily-ym%4yr%2mo", "all", "none", "none", 1 +"ocean_model", "total_ocean_river_heat", "total_ocean_river_heat", "ocean-scalar-1-daily-ym%4yr%2mo", "all", "none", "none", 1 +"ocean_model", "total_ocean_river", "total_ocean_river", "ocean-scalar-1-daily-ym%4yr%2mo", "all", "none", "none", 1 +"ocean_model", "total_ocean_runoff_heat", "total_ocean_runoff_heat", "ocean-scalar-1-daily-ym%4yr%2mo", "all", "none", "none", 1 +"ocean_model", "total_ocean_runoff", "total_ocean_runoff", "ocean-scalar-1-daily-ym%4yr%2mo", "all", "none", "none", 1 +"ocean_model", "total_ocean_salt", "total_ocean_salt", "ocean-scalar-1-daily-ym%4yr%2mo", "all", "none", "none", 1 +"ocean_model", "total_ocean_sens_heat", "total_ocean_sens_heat", "ocean-scalar-1-daily-ym%4yr%2mo", "all", "none", "none", 1 +"ocean_model", "total_ocean_sfc_salt_flux_coupler", "total_ocean_sfc_salt_flux_coupler", "ocean-scalar-1-daily-ym%4yr%2mo", "all", "none", "none", 1 +"ocean_model", "total_ocean_swflx_vis", "total_ocean_swflx_vis", "ocean-scalar-1-daily-ym%4yr%2mo", "all", "none", "none", 1 +"ocean_model", "total_ocean_swflx", "total_ocean_swflx", "ocean-scalar-1-daily-ym%4yr%2mo", "all", "none", "none", 1 + + +# monthly 2d snapshots + + +# monthly 3d snapshots diff --git a/ocean/field_table b/ocean/field_table new file mode 100644 index 0000000..730d954 --- /dev/null +++ b/ocean/field_table @@ -0,0 +1,63 @@ +"prog_tracers","ocean_mod","temp" +horizontal-advection-scheme = mdppm +vertical-advection-scheme = mdppm +restart_file = ocean_temp_salt.res.nc +ppm_hlimiter = 3 +ppm_vlimiter = 3 +/ +"prog_tracers","ocean_mod","salt" +horizontal-advection-scheme = mdppm +vertical-advection-scheme = mdppm +restart_file = ocean_temp_salt.res.nc +ppm_hlimiter = 3 +ppm_vlimiter = 3 +/ +"tracer_packages","ocean_mod","ocean_age_tracer" +names = global +const_init_tracer = .true. +horizontal-advection-scheme = mdppm +vertical-advection-scheme = mdppm +ppm_hlimiter = 3 +ppm_vlimiter = 3 +restart_file = ocean_age.res.nc +min_tracer_limit=0.0 +/ +"namelists","ocean_mod","ocean_age_tracer/global" +slat = -90.0 +nlat = 90.0 +wlon = 0.0 +elon = 360.0 +/ +# added by FRE: sphum must be present in atmos +# specific humidity for moist runs + "TRACER", "atmos_mod", "sphum" + "longname", "specific humidity" + "units", "kg/kg" + "profile_type", "fixed", "surface_value=3.e-6" / +# prognotic cloud scheme tracers + "TRACER", "atmos_mod", "liq_wat" + "longname", "cloud liquid specific humidity" + "units", "kg/kg" / + "TRACER", "atmos_mod", "ice_wat" + "longname", "cloud ice water specific humidity" + "units", "kg/kg" / + "TRACER", "atmos_mod", "cld_amt" + "longname", "cloud fraction" + "units", "none" / +# test tracer for radon +# "TRACER", "atmos_mod", "radon" +# "longname", "radon test tracer" +# "units", "kg/kg" / + "TRACER", "land_mod", "sphum" + "longname", "specific humidity" + "units", "kg/kg" / + +"rayleigh_damp_table","ocean_mod","rayleigh_damp_table" +"rayleigh","Lombok","itable=36,jtable=112,ktable_1=1,ktable_2=50,rayleigh_damp_table=5400" +"rayleigh","Ombai","itable=44,jtable=111,ktable_1=1,ktable_2=50,rayleigh_damp_table=5400" +"rayleigh","Torres","itable=62,jtable=106,ktable_1=1,ktable_2=50,rayleigh_damp_table=5400" +"rayleigh","Torres","itable=62,jtable=107,ktable_1=1,ktable_2=50,rayleigh_damp_table=5400" +"rayleigh","Torres","itable=62,jtable=108,ktable_1=1,ktable_2=50,rayleigh_damp_table=5400" +"rayleigh","Torres","itable=62,jtable=109,ktable_1=1,ktable_2=50,rayleigh_damp_table=5400"/ + + diff --git a/ocean/input.nml b/ocean/input.nml new file mode 100644 index 0000000..a06d7e5 --- /dev/null +++ b/ocean/input.nml @@ -0,0 +1,604 @@ +&auscom_ice_nml + aice_cutoff = 0.15 + chk_i2o_fields = .false. + chk_o2i_fields = .false. + do_ice_once = .false. + fixmeltt = .false. + frazil_factor = 1.0 + iceform_adj_salt = .false. + icemlt_factor = 1.0 + kmxice = 5 + pop_icediag = .true. + redsea_gulfbay_sfix = .false. + sign_stflx = 1.0 + tmelt = -0.216 + use_ioaice = .true. +/ + +&data_override_nml +/ + +&diag_manager_nml + debug_diag_manager = .false. + issue_oor_warnings = .true. + max_axes = 400 + max_files = 200 + max_num_axis_sets = 200 +/ + +&fms_io_nml + fileset_write = 'single' + threading_read = 'multi' + threading_write = 'single' +/ + +&fms_nml + clock_grain = 'LOOP' + domains_stack_size = 115200 +/ + +&mom_oasis3_interface_nml + fields_in = 'u_flux', 'v_flux', 'lprec', 'fprec', 'salt_flx', + 'mh_flux', 'sw_flux', 'q_flux', 't_flux', 'lw_flux', + 'runof', 'p', 'aice', 'wfimelt', 'wfiform', 'licefw', + 'liceht' + fields_out = 't_surf', 's_surf', 'u_surf', 'v_surf', 'dssldx', + 'dssldy', 'frazil' + num_fields_in = 17 + num_fields_out = 7 + send_after_ocean_update = .true. + send_before_ocean_update = .false. +/ + +&monin_obukhov_nml +/ + +&mpp_io_nml + deflate_level = -1 + shuffle = 1 +/ + +&ocean_adv_vel_diag_nml + diag_step = 4320 + large_cfl_value = 10.0 + max_cfl_value = 100.0 + verbose_cfl = .true. +/ + +&ocean_advection_velocity_nml + max_advection_velocity = 0.5 +/ + +&ocean_albedo_nml +/ + +&ocean_barotropic_nml + barotropic_halo = 10 + barotropic_time_stepping_a = .true. + barotropic_time_stepping_b = .false. + diag_step = 4320 + eta_max = 8.0 + frac_crit_cell_height = 0.2 + pred_corr_gamma = 0.2 + smooth_eta_diag_laplacian = .true. + smooth_eta_t_biharmonic = .false. + smooth_eta_t_laplacian = .true. + smooth_pbot_t_biharmonic = .false. + smooth_pbot_t_laplacian = .true. + truncate_eta = .false. + use_legacy_barotropic_halos = .false. + vel_micom_bih = 0.01 + vel_micom_lap = 0.05 + vel_micom_lap_diag = 0.2 + verbose_truncate = .true. + zero_tendency = .false. +/ + +&ocean_bbc_nml + bmf_implicit = .true. + cdbot_hi = 0.007 + cdbot_roughness_uamp = .true. + uresidual = 0.05 +/ + +&ocean_bih_friction_nml + bih_friction_scheme = 'general' +/ + +&ocean_bih_tracer_nml + use_this_module = .false. +/ + +&ocean_bihcst_friction_nml + use_this_module = .false. +/ + +&ocean_bihgen_friction_nml + bottom_5point = .true. + eq_lat_micom = 0.0 + eq_vel_micom_aniso = 0.0 + eq_vel_micom_iso = 0.0 + equatorial_zonal = .false. + k_smag_aniso = 0.0 + k_smag_iso = 2.0 + ncar_boundary_scaling = .true. + ncar_boundary_scaling_read = .false. + ncar_rescale_power = 2 + ncar_vconst_4 = 2e-08 + ncar_vconst_5 = 5 + use_this_module = .true. + vel_micom_aniso = 0.0 + vel_micom_bottom = 0.01 + vel_micom_iso = 0.04 + visc_crit_scale = 0.25 +/ + +&ocean_blob_nml +/ + +&ocean_convect_nml + use_this_module = .false. +/ + +&ocean_coriolis_nml + acor = 0.5 + use_this_module = .true. +/ + +&ocean_density_nml + eos_linear = .false. + eos_preteos10 = .true. + layer_nk = 80 + neutralrho_max = 1038.0 + neutralrho_min = 1028.0 + potrho_max = 1038.0 + potrho_min = 1028.0 +/ + +&ocean_domains_nml + max_tracers = 5 +/ + +&ocean_drifters_nml +/ + +&ocean_form_drag_nml + use_this_module = .false. +/ + +&ocean_frazil_nml + frazil_only_in_surface = .false. + freezing_temp_preteos10 = .true. + freezing_temp_simple = .false. + use_this_module = .true. +/ + +&ocean_grids_nml +/ + +&ocean_increment_eta_nml + use_this_module = .false. +/ + +&ocean_increment_tracer_nml + use_this_module = .false. +/ + +&ocean_increment_velocity_nml + use_this_module = .false. +/ + +&ocean_lap_friction_nml + lap_friction_scheme = 'general' +/ + +&ocean_lap_tracer_nml + use_this_module = .false. +/ + +&ocean_lapcst_friction_nml + use_this_module = .false. +/ + +&ocean_lapgen_friction_nml + bottom_5point = .true. + k_smag_aniso = 0.0 + k_smag_iso = 0.0 + restrict_polar_visc = .true. + restrict_polar_visc_lat = 60.0 + restrict_polar_visc_ratio = 0.35 + use_this_module = .true. + vel_micom_iso = 0.1 + viscosity_ncar = .false. + viscosity_ncar_2007 = .false. + viscosity_scale_by_rossby = .true. + viscosity_scale_by_rossby_power = 4.0 +/ + +&ocean_mixdownslope_nml + mixdownslope_mask_gfdl = .false. + mixdownslope_npts = 4 + read_mixdownslope_mask = .false. + use_this_module = .true. +/ + +&ocean_model_nml + baroclinic_split = 1 + barotropic_split = 80 + cmip_units = .true. + debug = .false. + io_layout = 4, 3 + layout = 16, 15 + surface_height_split = 1 + time_tendency = 'twolevel' + vertical_coordinate = 'zstar' +/ + +&ocean_momentum_source_nml + rayleigh_damp_exp_from_bottom = .false. + use_rayleigh_damp_table = .true. + use_this_module = .true. +/ + +&ocean_nphysics_new_nml +/ + +&ocean_nphysics_nml + use_nphysicsa = .false. + use_nphysicsb = .false. + use_nphysicsc = .true. + use_this_module = .true. +/ + +&ocean_nphysics_util_new_nml +/ + +&ocean_nphysics_util_nml + agm_closure = .true. + agm_closure_baroclinic = .true. + agm_closure_buoy_freq = 0.004 + agm_closure_eady_ave_mixed = .true. + agm_closure_eady_cap = .true. + agm_closure_eady_smooth_horz = .true. + agm_closure_eady_smooth_vert = .true. + agm_closure_grid_scaling = .true. + agm_closure_length = 50000.0 + agm_closure_lower_depth = 2000.0 + agm_closure_max = 600.0 + agm_closure_min = 50.0 + agm_closure_scaling = 0.07 + agm_closure_upper_depth = 100.0 + aredi = 600.0 + aredi_equal_agm = .false. + drhodz_mom4p1 = .true. + nphysics_util_zero_init = .true. +/ + +&ocean_nphysicsa_nml + use_this_module = .false. +/ + +&ocean_nphysicsb_nml + use_this_module = .false. +/ + +&ocean_nphysicsc_nml + bv_freq_smooth_vert = .true. + bvp_bc_mode = 2 + bvp_min_speed = 0.1 + bvp_speed = 0.0 + do_gm_skewsion = .true. + do_neutral_diffusion = .true. + epsln_bv_freq = 1e-12 + gm_skewsion_bvproblem = .true. + gm_skewsion_modes = .false. + neutral_eddy_depth = .true. + neutral_physics_limit = .true. + number_bc_modes = 2 + regularize_psi = .false. + smax_psi = 0.01 + smooth_psi = .true. + tmask_neutral_on = .true. + turb_blayer_min = 50.0 + use_this_module = .true. +/ + +&ocean_obc_nml +/ + +&ocean_obs_nml +/ + +&ocean_operators_nml +/ + +&ocean_overexchange_nml + use_this_module = .false. +/ + +&ocean_overflow_nml + use_this_module = .false. +/ + +&ocean_overflow_ofp_nml + use_this_module = .false. +/ + +&ocean_passive_nml +/ + +&ocean_pressure_nml +/ + +&ocean_rivermix_nml + river_diffuse_salt = .true. + river_diffuse_temp = .true. + river_diffusion_thickness = 0.0 + river_diffusivity = 0.0 + river_insertion_thickness = 40.0 + use_this_module = .true. +/ + +&ocean_riverspread_nml + use_this_module = .false. +/ + +&ocean_rough_nml + rough_scheme = 'beljaars' +/ + +&ocean_sbc_nml + avg_sfc_temp_salt_eta = .true. + avg_sfc_velocity = .true. + calvingspread = .false. + do_bitwise_exact_sum = .true. + do_flux_correction = .false. + land_model_heat_fluxes = .false. + max_delta_salinity_restore = -0.5 + max_ice_thickness = 0.0 + read_restore_mask = .false. + restore_mask_gfdl = .false. + runoff_salinity = 0.0 + salt_correction_scale = 0.0 + salt_restore_as_salt_flux = .true. + salt_restore_tscale = 21.28 + salt_restore_under_ice = .true. + temp_restore_tscale = -10.0 + use_full_patm_for_sea_level = .false. + use_waterflux = .true. + zero_heat_fluxes = .false. + zero_net_salt_correction = .false. + zero_net_salt_restore = .true. + zero_net_water_correction = .false. + zero_net_water_couple_restore = .true. + zero_net_water_coupler = .true. + zero_net_water_restore = .true. + zero_surface_stress = .false. + zero_water_fluxes = .false. +/ + +&ocean_shortwave_csiro_nml + use_this_module = .false. +/ + +&ocean_shortwave_gfdl_nml + enforce_sw_frac = .true. + optics_manizza = .true. + optics_morel_antoine = .false. + read_chl = .true. + use_this_module = .true. + zmax_pen = 1000000.0 +/ + +&ocean_shortwave_jerlov_nml + use_this_module = .false. +/ + +&ocean_shortwave_nml + use_shortwave_csiro = .false. + use_shortwave_gfdl = .true. + use_shortwave_jerlov = .false. + use_this_module = .true. +/ + +&ocean_sigma_transport_nml + use_this_module = .true. +/ + +&ocean_solo_nml +/ + +&ocean_sponges_eta_nml + use_this_module = .false. +/ + +&ocean_sponges_tracer_nml + use_this_module = .false. +/ + +&ocean_sponges_velocity_nml + use_this_module = .false. +/ + +&ocean_submesoscale_nml + coefficient_ce = 0.05 + front_length_const = 5000.0 + front_length_deform_radius = .true. + limit_psi = .true. + limit_psi_velocity_scale = 0.5 + min_kblt = 4 + smooth_advect_transport = .true. + smooth_advect_transport_num = 2 + smooth_hblt = .false. + smooth_psi = .true. + smooth_psi_num = 2 + submeso_advect_flux = .false. + submeso_advect_limit = .true. + submeso_advect_upwind = .true. + submeso_advect_zero_bdy = .true. + submeso_diffusion = .false. + submeso_diffusion_biharmonic = .true. + submeso_diffusion_scale = 10.0 + submeso_skew_flux = .true. + use_hblt_equal_mld = .true. + use_psi_legacy = .false. + use_this_module = .true. +/ + +&ocean_tempsalt_nml + pottemp_2nd_iteration = .true. + s_max = 70.0 + s_max_limit = 42.0 + s_min = 0.0 + s_min_limit = 2.0 + t_max = 55.0 + t_max_limit = 32.0 + t_min = -20.0 + t_min_limit = -5.0 + temperature_variable = 'conservative_temp' +/ + +&ocean_thickness_nml + debug_this_module_detail = .false. + rescale_mass_to_get_ht_mod = .false. + thickness_method = 'energetic' +/ + +&ocean_time_filter_nml +/ + +&ocean_topog_nml + min_thickness = 0.001 +/ + +&ocean_tracer_advect_nml + read_basin_mask = .false. +/ + +&ocean_tracer_diag_nml + diag_step = 4320 + do_bitwise_exact_sum = .false. + tracer_conserve_days = 30.0 +/ + +&ocean_tracer_nml + age_tracer_max_init = 0.0 + frazil_heating_after_vphysics = .true. + frazil_heating_before_vphysics = .false. + limit_age_tracer = .true. + remap_depth_to_s_init = .false. + use_tempsalt_check_range = .true. + zero_tendency = .false. + zero_tracer_source = .false. +/ + +&ocean_velocity_advect_nml +/ + +&ocean_velocity_diag_nml + diag_step = 4320 + energy_diag_step = 4320 + large_cfl_value = 10.0 + max_cfl_value = 100.0 +/ + +&ocean_velocity_nml + adams_bashforth_third = .true. + max_cgint = 1.0 + truncate_velocity = .false. + truncate_velocity_value = 2.0 + truncate_verbose = .true. + zero_tendency = .false. + zero_tendency_explicit_a = .false. + zero_tendency_explicit_b = .false. + zero_tendency_implicit = .false. +/ + +&ocean_vert_chen_nml +/ + +&ocean_vert_const_nml +/ + +&ocean_vert_gotm_nml +/ + +&ocean_vert_kpp_mom4p0_nml +/ + +&ocean_vert_kpp_mom4p1_nml + diff_cbt_iw = 0.0 + double_diffusion = .true. + kbl_standard_method = .false. + ricr = 0.3 + smooth_blmc = .false. + smooth_ri_kmax_eq_kmu = .true. + use_this_module = .true. + visc_cbu_iw = 0.0 +/ + +&ocean_vert_mix_nml + aidif = 1.0 + bryan_lewis_diffusivity = .false. + bryan_lewis_lat_depend = .false. + hwf_diffusivity = .false. + hwf_min_diffusivity = 2e-06 + hwf_n0_2omega = 20.0 + j09_bgmax = 5e-06 + j09_bgmin = 1e-06 + j09_diffusivity = .true. + j09_lat = 20.0 + use_diff_cbt_table = .false. + vert_diff_back_via_max = .true. + vert_mix_scheme = 'kpp_mom4p1' +/ + +&ocean_vert_pp_nml +/ + +&ocean_vert_tidal_nml + background_diffusivity = 0.0 + background_viscosity = 0.0001 + decay_scale = 500.0 + drag_dissipation_use_cdbot = .true. + drhodz_min = 1e-10 + fixed_wave_dissipation = .false. + max_wave_diffusivity = 0.01 + mixing_efficiency_n2depend = .true. + read_roughness = .true. + read_tide_speed = .true. + read_wave_dissipation = .false. + reading_roughness_amp = .true. + reading_roughness_length = .false. + roughness_scale = 12000.0 + shelf_depth_cutoff = -1000.0 + tide_speed_data_on_t_grid = .true. + use_drag_dissipation = .true. + use_legacy_methods = .false. + use_this_module = .true. + use_wave_dissipation = .true. + wave_energy_flux_max = 0.1 +/ + +&ocean_xlandinsert_nml + use_this_module = .false. +/ + +&ocean_xlandmix_nml + use_this_module = .false. +/ + +&oda_core_nml +/ + +&oda_nml +/ + +&surface_flux_nml +/ + +&xgrid_nml + interp_method = 'second_order' + make_exchange_reproduce = .false. + nsubset = 16 +/ diff --git a/tools/diag_table_source.yaml b/tools/diag_table_source.yaml new file mode 100755 index 0000000..abce5f3 --- /dev/null +++ b/tools/diag_table_source.yaml @@ -0,0 +1,344 @@ +####################################################################################################### +# This yaml file is used by make_diag_table.py to create a diag_table file specifying MOM5 diagnostics. +# Latest version: https://github.com/COSIMA/make_diag_table +# +# Define the diagnostics you want in the diag_table section below. +# +# The MOM diag_table format is defined here: +# https://github.com/mom-ocean/MOM5/blob/master/src/shared/diag_manager/diag_table.F90 +####################################################################################################### + + +# Define global default settings which will be applied to all diagnostics, +# unless overridden in diag_table section below, either in defaults or individual fields. +# You're unlikely to need to change any of the global_defaults. +global_defaults: +# global_section: + title: ACCESS-OM2 # any string + base_date: [ 1900, 1, 1, 0, 0, 0 ] # reference time used for the time units. six integers: year, month, day, hour, minute, second +# file section: + file_name: # file name (without trailing ".nc") is constructed from these components, + # separated by file_name_separator, as per https://github.com/COSIMA/access-om2/issues/185 + # All these components (other than field_name) must be names that exist in global_defaults. + # If file_name_date or file_name_date_section are used, it must be the last item. + - file_name_prefix + - file_name_dimension + - field_name # substituted by field name in diag_table section below + - output_freq + - output_freq_units + - reduction_method + - file_name_date + # - file_name_date_section + output_freq: 1 # integer: output sampling frequency in output_freq_units (0: every timestep; -1: only at end of run) + output_freq_units: months # time units for output: years, months, days, hours, minutes, or seconds + file_format: 1 # integer, must be 1, specifying NetCDF (the only format currently supported) + time_axis_units: days # time units for the output file time axis: years, months, days, hours, minutes, or seconds + time_axis_name: time # must be "time" (case-insensitive) + new_file_freq: 1 # optional integer: frequency (in new_file_freq_units) for closing the existing file, and creating a new file + new_file_freq_units: years # time units for new_file_freq: years, months, days, hours, minutes, or seconds (optional; required if and only if new_file_freq specified) + start_time: # Time to start the file for the first time. The format of this string is the same as base_date (optional; requires new_file_freq, new_file_freq_units) + file_duration: # integer: How long file should receive data after start time (optional; requires new_file_freq, new_file_freq_units, start_time) + file_duration_units: # units for file_duration: years, months, days, hours, minutes, or seconds (optional; required if and only if file_duration specified) +# field section: + module_name: ocean_model + field_name: # set via keys in the fields section of the diag_table section below + output_name: # same as field_name unless overridden + # file_name: # same as file_name in file_section above unless overridden in diag_table section below + time_sampling: all # Currently not used. Please use the string "all". + reduction_method: mean # mean, snap, rms, pow##, min, max, or diurnal## + # reduction_method options: + # mean or average or true: Average from the last time written to the current time. Becomes "average" in diag_table. + # snap or none or false: No reduction. Write snapshot of current time step value only. Becomes "none" in diag_table. + # rms: Calculate the root mean square from the last time written to the current time. + # pow##: Calculate the mean of the power ## from the last time written to the current time. + # min: Minimum value from last write to current time. + # max: Maximum value from last write to current time. + # diurnal##: ## diurnal averages + regional_section: none # string: bounds of the regional section to capture ("none" indicates a global region). String format: lat_min, lat_max, lon_min, lon_max, vert_min, vert_max. Use vert_min = -1 and vert_max = -1 to get the entire vertical axis. + packing: 2 + # packing is the Fortran number KIND of the data written: + # 1: double precision + # 2: float (single precision) + # 4: packed 16-bit integers + # 8: packed 1-byte (not tested) +# extra things for constructing filename: + file_name_dimension: 3d # descriptor for filename, e.g. 3d, 2d, scalar + file_name_prefix: ocean + file_name_date: "ym%4yr%2mo" # run date/time of file opening; format: %, 1 digit (#digits), one of (yr, mo, dy, hr, mi, sc); date/time components will be separated by _ in filename. + file_name_separator: "-" # used to separate filename components; best not to use "_" to avoid confusion with fields and dates + file_name_omit_empty: true # whether to omit empty filename components to avoid duplicate file_name_separator + file_name_substitutions: # string replacements for filename components + years: yearly + months: monthly + days: daily + hours: hourly + none: snap # careful! will apply to both reduction_method and regional_section + 'False': snap + average: mean + 'True': mean + None: "" # for empty items + file_name_date_section: # These are separated by "_". If file_name_date is used, it must be the last item. + - output_freq + - output_freq_units + - reduction_method + - file_name_date + + +####################################################################################################### +# diag_table section - this defines the diagnostics that will appear in diag_table. +# +# Top-level categories in diag_table have arbitrary names (they're just used for +# comments in the output diag_table). Make as many of these as you like to group +# similar diagnostics with shared defaults. Note that each of the top-level +# categories can have only have one instance of each field name, so if you need +# multiple outputs of the same field (e.g. as both averages and snapshots), you’ll +# need to make additional categories. +# +# Within each top-level category there's an optional defaults section and a +# fields section. The defaults section overrides items in global_defaults for +# all fields in the category. The field section specifies diagnostic field +# names. To add a new diagnostic, all you need to do is add its name to the +# field section in the appropriate category. Each field name can be followed by +# a dictionary overriding the category and global defaults for that field only. +# +# Some of the available diagnostics are listed here: +# https://raw.githubusercontent.com/COSIMA/access-om2/master/MOM_diags.txt +# https://github.com/COSIMA/access-om2/wiki/Technical-documentation#MOM5-diagnostics-list +diag_table: + 'static 2d grid data': + defaults: # these can be overridden for individual fields below + file_name_dimension: 2d # descriptor for filename, e.g. 3d, 2d, scalar + file_name: # file name (without trailing ".nc") is constructed from these components, + # separated by file_name_separator, as per https://github.com/COSIMA/access-om2/issues/185 + # All these components (other than field_name) must be names that exist in global_defaults. + - file_name_prefix + - file_name_dimension + - field_name # substituted by field name in fields section below + reduction_method: snap # mean, snap, rms, pow##, min, max, or diurnal## + output_freq: -1 # Output frequency in output_freq_units (0: every timestep; -1: only at end of run) + new_file_freq: # optional integer: frequency (in new_file_freq_units) for closing the existing file, and creating a new file + fields: + area_t: + area_u: + drag_coeff: + dxt: + dxu: + dyt: + dyu: + geolat_c: + geolat_t: + geolon_c: + geolon_t: + ht: + hu: + kmt: + kmu: + 'monthly 3d fields': + defaults: # these can be overridden for individual fields below + file_name_dimension: 3d # descriptor for filename, e.g. 3d, 2d, scalar + output_freq: 1 # integer: output sampling frequency in output_freq_units (0: every timestep; -1: only at end of run) + output_freq_units: months # time units for output: years, months, days, hours, minutes, or seconds + fields: + age_global: + # aiso_bih: + buoyfreq2_wt: + diff_cbt_t: + dzt: # potentially calculable from other fields - https://github.com/COSIMA/access-om2/issues/203#issuecomment-635752170 + pot_rho_0: + pot_rho_2: + pot_temp: + salt: + temp_xflux_adv: + temp_yflux_adv: + temp: + # tx_trans_gm: + # tx_trans_nrho_submeso: + # tx_trans_rho_gm: + # tx_trans_rho: + # tx_trans_submeso: + tx_trans: + ty_trans_gm: + ty_trans_nrho_submeso: + ty_trans_rho_gm: + ty_trans_rho: + ty_trans_submeso: + ty_trans: + u: + v: + vert_pv: + # vorticity_z: + wt: + 'monthly 3d squared fields': # for calculating EKE etc + defaults: # these can be overridden for individual fields below + file_name_dimension: 3d # descriptor for filename, e.g. 3d, 2d, scalar + output_freq: 1 # integer: output sampling frequency in output_freq_units (0: every timestep; -1: only at end of run) + output_freq_units: months # time units for output: years, months, days, hours, minutes, or seconds + reduction_method: pow02 # mean, snap, rms, pow##, min, max, or diurnal## + fields: + u: + v: + 'monthly 2d fields': + defaults: # these can be overridden for individual fields below + file_name_dimension: 2d # descriptor for filename, e.g. 3d, 2d, scalar + output_freq: 1 # integer: output sampling frequency in output_freq_units (0: every timestep; -1: only at end of run) + output_freq_units: months # time units for output: years, months, days, hours, minutes, or seconds + fields: + agm: + aredi: + bmf_u: + bmf_v: + ekman_we: + eta_nonbouss: + evap_heat: + evap: + fprec_melt_heat: + fprec: + frazil_3d_int_z: + lprec: + lw_heat: + melt: + mh_flux: + mld: + net_sfc_heating: + pbot_t: + pme_net: + pme_river: + river: + runoff: + sea_level_sq: + sea_level: + sens_heat: + sfc_hflux_coupler: + sfc_hflux_from_runoff: + sfc_hflux_pme: + sfc_salt_flux_coupler: + sfc_salt_flux_ice: + sfc_salt_flux_restore: + surface_pot_temp: + surface_salt: + swflx: + tau_x: + tau_y: + temp_int_rhodz: + temp_xflux_adv_int_z: + temp_xflux_gm_int_z: + temp_xflux_ndiffuse_int_z: + temp_xflux_submeso_int_z: + temp_yflux_adv_int_z: + temp_yflux_gm_int_z: + temp_yflux_ndiffuse_int_z: + temp_yflux_submeso_int_z: + tx_trans_int_z: + ty_trans_int_z: + wfiform: + wfimelt: + 'monthly 2d fields with different reduction methods': + defaults: # these can be overridden for individual fields below + file_name_dimension: 2d # descriptor for filename, e.g. 3d, 2d, scalar + output_freq: 1 # integer: output sampling frequency in output_freq_units (0: every timestep; -1: only at end of run) + output_freq_units: months # time units for output: years, months, days, hours, minutes, or seconds + fields: + mld: {reduction_method: max} # max avoids spurious small values due to rainfall + surface_pot_temp: {reduction_method: min} # min for comparison with foundation temperature + 'daily 2d fields': + defaults: # these can be overridden for individual fields below + file_name_dimension: 2d # descriptor for filename, e.g. 3d, 2d, scalar + output_freq: 1 # integer: output sampling frequency in output_freq_units (0: every timestep; -1: only at end of run) + output_freq_units: days # time units for output: years, months, days, hours, minutes, or seconds + fields: + bottom_temp: + frazil_3d_int_z: + mld: + pme_river: + sea_level: + sfc_hflux_coupler: + sfc_hflux_from_runoff: + sfc_hflux_pme: + surface_pot_temp: + surface_salt: + usurf: + vsurf: + 'daily 2d maximum fields': + defaults: # these can be overridden for individual fields below + file_name_dimension: 2d # descriptor for filename, e.g. 3d, 2d, scalar + output_freq: 1 # integer: output sampling frequency in output_freq_units (0: every timestep; -1: only at end of run) + output_freq_units: days # time units for output: years, months, days, hours, minutes, or seconds + reduction_method: max # mean, snap, rms, pow##, min, max, or diurnal## + fields: + bottom_temp: + sea_level: + surface_pot_temp: + 'daily 2d minimum fields': + defaults: # these can be overridden for individual fields below + file_name_dimension: 2d # descriptor for filename, e.g. 3d, 2d, scalar + output_freq: 1 # integer: output sampling frequency in output_freq_units (0: every timestep; -1: only at end of run) + output_freq_units: days # time units for output: years, months, days, hours, minutes, or seconds + reduction_method: min # mean, snap, rms, pow##, min, max, or diurnal## + fields: + surface_pot_temp: # min for comparison with foundation temperature + 'daily scalar snapshots': # snapshots of global integrals give better parallel performance + defaults: # these can be overridden for individual fields below + file_name_dimension: scalar # descriptor for filename, e.g. 3d, 2d, scalar + file_name: # file name (without trailing ".nc") is constructed from these components, + # separated by file_name_separator, as per https://github.com/COSIMA/access-om2/issues/185 + # All these components (other than field_name) must be names that exist in global_defaults. + - file_name_prefix + - file_name_dimension + - output_freq + - output_freq_units + - file_name_date + output_freq: 1 # integer: output sampling frequency in output_freq_units (0: every timestep; -1: only at end of run) + output_freq_units: days # time units for output: years, months, days, hours, minutes, or seconds + reduction_method: snap # mean, snap, rms, pow##, min, max, or diurnal## + packing: 1 # double precision + fields: + eta_global: + ke_tot: + pe_tot: + rhoave: + salt_global_ave: + salt_surface_ave: + temp_global_ave: + temp_surface_ave: + total_net_sfc_heating: + total_ocean_evap_heat: + total_ocean_evap: + total_ocean_fprec_melt_heat: + total_ocean_fprec: + total_ocean_heat: + total_ocean_hflux_coupler: + total_ocean_hflux_evap: + total_ocean_hflux_prec: + total_ocean_lprec: + total_ocean_lw_heat: + total_ocean_melt: + total_ocean_mh_flux: + total_ocean_pme_river: + total_ocean_river_heat: + total_ocean_river: + total_ocean_runoff_heat: + total_ocean_runoff: + total_ocean_salt: + total_ocean_sens_heat: + total_ocean_sfc_salt_flux_coupler: + total_ocean_swflx_vis: + total_ocean_swflx: + 'monthly 2d snapshots': + defaults: # these can be overridden for individual fields below + file_name_dimension: 2d # descriptor for filename, e.g. 3d, 2d, scalar + output_freq: 1 # integer: output sampling frequency in output_freq_units (0: every timestep; -1: only at end of run) + output_freq_units: months # time units for output: years, months, days, hours, minutes, or seconds + reduction_method: snap # mean, snap, rms, pow##, min, max, or diurnal## + fields: + # sea_level: + 'monthly 3d snapshots': + defaults: # these can be overridden for individual fields below + file_name_dimension: 3d # descriptor for filename, e.g. 3d, 2d, scalar + output_freq: 1 # integer: output sampling frequency in output_freq_units (0: every timestep; -1: only at end of run) + output_freq_units: months # time units for output: years, months, days, hours, minutes, or seconds + reduction_method: snap # mean, snap, rms, pow##, min, max, or diurnal## + fields: + # temp: + # u: + # v: + # vorticity_z: diff --git a/tools/make_diag_table.py b/tools/make_diag_table.py new file mode 100755 index 0000000..ea5d2a9 --- /dev/null +++ b/tools/make_diag_table.py @@ -0,0 +1,143 @@ +#!/usr/bin/env python3 +""" + +Generate MOM5 diag_table file from diag_table_source.yaml +Latest version: https://github.com/COSIMA/make_diag_table + +The MOM diag_table format is defined here: +https://github.com/mom-ocean/MOM5/blob/master/src/shared/diag_manager/diag_table.F90 +and some of the available diagnostics are listed here: +https://raw.githubusercontent.com/COSIMA/access-om2/master/MOM_diags.txt +https://github.com/COSIMA/access-om2/wiki/Technical-documentation#MOM5-diagnostics-list + +""" + +from __future__ import print_function +import sys + +try: + assert sys.version_info >= (3, 5) # need python >= 3.5 for combining defaults +except AssertionError: + print('\nFatal error: Python version must be >=3.5') + print('On NCI, do the following and try again:') + print(' module use /g/data/hh5/public/modules; module load conda/analysis3\n') + raise + +try: + import yaml +except ModuleNotFoundError: + print('\nFatal error: pyyaml package not found.') + print('On NCI, do the following and try again:') + print(' module use /g/data/hh5/public/modules; module load conda/analysis3\n') + raise + + +def set_filename(indict): + """ + Create standardised filename as defined in 'file_name' entry. + """ + fn = indict['file_name'] + if isinstance(fn, list): + fnd = indict['file_name_date_section'] + if isinstance(fnd, list): + fnd = [str(indict[k]) for k in fnd] + fnd = [indict['file_name_substitutions'].get(v, v) for v in fnd] + if indict['file_name_omit_empty']: + fnd = [v for v in fnd if v != ''] + if fnd[-1][0] == '%': + # omit _ since date specification already supplies leading _ + indict['file_name_date_section'] = '_'.join(fnd[0:-1]) + fnd[-1] + else: + indict['file_name_date_section'] = '_'.join(fnd) + fn = [str(indict[k]) for k in fn] +# TODO: make substitutions specific to particular components of indict['file_name']? + fn = [indict['file_name_substitutions'].get(v, v) for v in fn] + if indict['file_name_omit_empty']: + fn = [v for v in fn if v != ''] + return indict['file_name_separator'].join(fn) + else: + return fn + + +def strout(v): + """Return string representation, with double quotes around strings.""" + if isinstance(v, str): + return '"' + v + '"' + else: + return str(v) + + +indata = yaml.load(open('diag_table_source.yaml', 'r'), Loader=yaml.SafeLoader) +outstrings = [] # strings to write to diag_table +filenames = {} # diagnostic output filenames + +# global section +d = indata['global_defaults'] +outstrings.append(d['title']) +outstrings.append(' '.join([str(x) for x in d['base_date']])) +outstrings.append(''' +######################################################################################################### +# # +# DO NOT EDIT! Instead, edit diag_table_source.yaml and run make_diag_table.py to re-generate this file # +# # +#########################################################################################################''') + +# interleaved file and field sections +for k, grp in indata['diag_table'].items(): + # ensure expected entries are present in group + if grp is None: + grp = dict() + grp['defaults'] = grp.get('defaults', dict()) + if grp['defaults'] is None: + grp['defaults'] = dict() + grp['fields'] = grp.get('fields', dict()) + if grp['fields'] is None: + grp['fields'] = dict() + + outstrings.append('\n\n# '+ k) # use group name as a comment + + for field_name, field_dict in grp['fields'].items(): + + if field_dict is None: + field_dict = {} + + # combine field_dict with defaults into one dict f + f = {**indata['global_defaults'], + **grp['defaults'], + **field_dict, + 'field_name': field_name} + + if f['output_name'] is None: + f['output_name'] = f['field_name'] + + fname = set_filename(f) + if fname not in filenames: # to ensure that each filename is specified once only + fnameline = [fname, f['output_freq'], f['output_freq_units'], + f['file_format'], f['time_axis_units'], f['time_axis_name']] + if 'new_file_freq' in f: + if f['new_file_freq'] is not None: + fnameline.extend([f['new_file_freq'], f['new_file_freq_units']]) + if 'start_time' in f: + if f['start_time'] is not None: + fnameline.append(' '.join([str(x) for x in f['start_time']])) + if 'file_duration' in f: + if f['file_duration'] is not None: + fnameline.extend([f['file_duration'], f['file_duration_units']]) + outstrings.append('') + outstrings.append(', '.join([strout(v) for v in fnameline])) + filenames[fname] = None + + if f['reduction_method'] in ['snap', False]: + f['reduction_method'] = 'none' + if f['reduction_method'] in ['mean', True]: + f['reduction_method'] = 'average' + + fieldline = [f['module_name'], f['field_name'], f['output_name'], + fname, f['time_sampling'], f['reduction_method'], + f['regional_section'], f['packing']] + outstrings.append(', '.join([strout(v) for v in fieldline])) + +# output outstrings +with open('diag_table', 'w') as f: + for line in outstrings: + f.write('%s\n' % line) diff --git a/tools/resub.sh b/tools/resub.sh new file mode 100755 index 0000000..e70f56a --- /dev/null +++ b/tools/resub.sh @@ -0,0 +1,60 @@ +#!/usr/bin/bash + +logfile='resubmit.log' +counterfile='resubmit.count' +outfile='access-om2.err' + +MAX_RESUBMISSIONS=2 +date >> ${logfile} + +# Define errors from which a resubmit is appropriate +declare -a errors=( + "Segmentation fault: address not mapped to object" + "Segmentation fault: invalid permissions for mapped object" + "Transport retry count exceeded" + "atmosphere/input.nml" + ) + +resub=false +for error in "${errors[@]}" +do + if grep -q "${error}" ${outfile} + then + echo "Error found: ${error}" >> ${logfile} + resub=true + break + else + echo "Error not found: ${error}" >> ${logfile} + fi +done + +if ! ${resub} +then + echo "Error not eligible for resubmission" >> ${logfile} + exit 0 +fi + +if [ -f "${counterfile}" ] +then + PAYU_N_RESUB=$(cat ${counterfile}) +else + echo "Reset resubmission counter" >> ${logfile} + PAYU_N_RESUB=${MAX_RESUBMISSIONS} +fi + +echo "Resubmission counter: ${PAYU_N_RESUB}" >> ${logfile} + +if [[ "${PAYU_N_RESUB}" -gt 0 ]] +then + # Sweep and re-run + ${PAYU_PATH}/payu sweep >> ${logfile} + ${PAYU_PATH}/payu run -n ${PAYU_N_RUNS} >> ${logfile} + # Decrement resub counter and save to counter file + ((PAYU_N_RESUB=PAYU_N_RESUB-1)) + echo "${PAYU_N_RESUB}" > ${counterfile} +else + echo "Resubmit limit reached ... " >> ${logfile} + rm ${counterfile} +fi + +echo "" >> ${logfile} From 8934a40c7b9a7abec5a1d284d1864e0e37d4fcc9 Mon Sep 17 00:00:00 2001 From: Tommy Gatti Date: Thu, 13 Jun 2024 09:49:47 +1000 Subject: [PATCH 2/2] Update ci.json to point to correct workflow --- .github/workflows/ci.yml | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/.github/workflows/ci.yml b/.github/workflows/ci.yml index c8b58bd..2e0f98c 100644 --- a/.github/workflows/ci.yml +++ b/.github/workflows/ci.yml @@ -36,7 +36,7 @@ jobs: pr-comment: name: Comment if: github.event_name == 'issue_comment' - uses: codegat-test-org/meta-model-configs/.github/workflows/config-pr-2-comment.yml@main + uses: codegat-test-org/meta-model-configs/.github/workflows/config-pr-2-confirm.yml@main secrets: inherit permissions: contents: write # For updating metadata.yaml version and committing checksums