Error when running with EBUS after compilation, 2nd nesting

asked 2023-08-10 15:49:19 +0200

updated 2023-08-18 05:43:37 +0200

Im using the script below to run the model (second nesting), but Im getting this error:

ERROR: keyword not found: diagbioFlux_history_fields ERROR: keyword not found: diagbioVSink_history_fields ERROR: keyword not found: diagbioGasExc_history_fields ERROR: keyword not found: diagbioFlux_average_fields ERROR: keyword not found: diagbioVSink_average_fields ERROR: keyword not found: diagbioGasExc_average_fields

script:

title: BENGUELA TEST MODEL ZOOM LEVEL #1 time_stepping: NTIMES dt[sec] NDTFAST NINFO 1 25 60 1 S-coord: THETA_S, THETA_B, Hc (m) 5.0d0 0.88d0 70.0d0 grid: filename ROMS_FILES/roms_grd.nc.2 forcing: filename ROMS_FILES/roms_frc.nc.2 bulk_forcing: filename ROMS_FILES/roms_blk.nc.2 climatology: filename ROMS_FILES/roms_clm.nc boundary: filename ROMS_FILES/roms_bry.nc initial: NRREC filename 1 ROMS_FILES/roms_ini.nc.1 restart: NRST, NRPFRST / filename 103680 -1 ROMS_FILES/roms_rst.nc.2 history: LDEFHIS, NWRT, NRPFHIS / filename T 10368 0 ROMS_FILES/roms_his.nc.2 averages: NTSAVG, NAVG, NRPFAVG / filename 1 576 0 ROMS_FILES/roms_avg.nc.2

primary_history_fields: zeta UBAR VBAR U V wrtT(1:NT) T T T T T 30T auxiliary_history_fields: rho Omega W Akv Akt Aks HBL HBBL Bostr Wstr Ustr Vstr rsw rlw lat sen HEL F F T F T F T T T T T T 10F

primary_averages: zeta UBAR VBAR U V wrtT(1:NT) T T T T T 30T auxiliary_averages: rho Omega W Akv Akt Aks HBL HBBL Bostr Wstr Ustr Vstr rsw rlw lat sen HEL F T T F T F T T T T T T 10F

rho0: 1025.d0

lateral_visc: VISC2, VISC4 [m^2/sec for all] 0. 0.

tracer_diff2: TNU2(1:NT) [m^2/sec for all] 30*0.0d0

tracer_diff4: TNU4(1:NT) [m^4/sec for all] 30*0.0d8

vertical_mixing: Akv_bak, Akt_bak [m^2/sec] 0.d0 30*0.d0

bottom_drag: RDRG [m/s], RDRG2, Zob [m], Cdb_min, Cdb_max 0.0d-04 1.25d-3 0.d-3 1.d-4 1.d-1

gamma2: 1.0d0

sponge: X_SPONGE [m], V_SPONGE [m^2/sec] 0.5e5 10.0d0

nudg_cof: TauT_in, TauT_out, TauM_in, TauM_out [days for all] 0.1 5. 0.1 5.

diagnostics: ldefdia nwrtdia nrpfdia /filename T 5760 0 ROMS_FILES/roms_dia.nc.1

diag_avg: ldefdia_avg ntsdia_avg nwrtdia_avg nprfdia_avg /filename T 1 432 0 ROMS_FILES/roms_dia_avg.nc.1

diag3D_history_fields: diag_tracers3D(1:NT) 30*T

diag2D_history_fields: diag_tracers2D(1:NT) 30*T

diag3D_average_fields: diag_tracers3D_avg(1:NT) 30*T

diag2D_average_fields: diag_tracers2D_avg(1:NT) 30*T

diagnosticsM: ldefdiaM nwrtdiaM nrpfdiaM /filename F 5760 0 ROMS_FILES/roms_diaM.nc.2

diagM_avg: ldefdiaM_avg ntsdiaM_avg nwrtdiaM_avg nprfdiaM_avg /filename F 1 5760 0 ROMS_FILES/roms_diaM_avg.nc.2

diagM_history_fields: diag_momentum(1:2) T T

diagM_average_fields: diag_momentum_avg(1:2) T T

diagnostics_bio: ldefdiabio nwrtdiabio nrpfdiabio /filename T 5760 0 ROMS_FILES/roms_diabio.nc.2

diagbio_avg: ldefdiabio_avg ntsdiabio_avg nwrtdiabio_avg nprfdiabio_avg /filename T 1 1152 0 ROMS_FILES/roms_diabio_avg.nc.2

biology: forcing file roms_frcbio.nc.1

sediments: input file sediment.in sediment_history_fields: bed_thick bed_poros bed_fra(sand,silt) T F T T

bbl_history_fields: Abed Hripple Lripple Zbnot Zbapp Bostrw T F F T F T

floats: LDEFFLT, NFLT, NRPFFLT / inpname, hisname T 6 0 floats.in ROMS_FILES/floats.nc float_fields: Grdvar ... (more)

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answered 2023-08-23 10:01:58 +0200

Gandy Rosales
1

This is the AGRIF im using for the second nesting:

C:\fakepath\AGRIF_FixedGrids.in

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I don t know but you have "~" in last line, can you remove it to see what happens ? thanks

Gui ( 2023-08-23 14:31:23 +0200 )edit

I removed that, but nope. It doesn't run. Actually I compile the model again just to double check all was ok. and now Im back to the first sets of errors Ive posted here. I just wanted to get Net Primary Production (NPP) from this second nesting, since I couldn't get it from the first one.

Gandy Rosales ( 2023-08-23 17:14:54 +0200 )edit

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answered 2023-08-22 16:32:48 +0200

Gandy Rosales
1

Hi!, I've tried running again the model with that, but now Im getting this error: Do you have any idea why this might be happening? Thank you in advance

Computing YEAR 8 MONTH 4 forrtl: severe (59): list-directed I/O syntax error, unit 7, file /Volumes/Elements/ROMS_bio_gandy/RUN_AgrifEBUS/AGRIF_FixedGrids.in Image PC Routine Line Source romsEBUS1 000000010AA4D071 for__io_return Unknown Unknown romsEBUS1 000000010AA7F85D for_read_seq_lis_ Unknown Unknown romsEBUS1 000000010AA7E2AD for_read_seq_lis Unknown Unknown romsEBUS1 000000010A8E0878 agrif_read_fixed_ Unknown Unknown romsEBUS1 000000010A8E0064 computenbmaxtimes Unknown Unknown romsEBUS1 000000010A7A4257 MAIN__ Unknown Unknown romsEBUS1 000000010A7A296E main Unknown Unknown

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Hi, Can you post here the file AGRIF_FixedGrids.in you try to read , please ?

Gui ( 2023-08-22 17:13:05 +0200 )edit

Im using this : 2 75 239 15 125 3 3 3 3 120 440 30 215 3 3 4 4 0 # number of children per parent # imin imax jmin jmax spacerefx spacerefy timerefx timerefy # [all coordinates are relative to each parent grid!]

Gandy Rosales ( 2023-08-23 03:22:10 +0200 )edit

# number of children : 2 # imin imax jmin jmax spacerefx spacerefy timerefx timerefy : 75 239 15 125 3 3 3 3 # imin imax jmin jmax spacerefx spacerefy timerefx timerefy :120 440 30 215 3 3 4 4

Gandy Rosales ( 2023-08-23 03:26:53 +0200 )edit

Can send your file directly with a link in the forum instead ? Thanks

Gui ( 2023-08-23 07:10:33 +0200 )edit

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answered 2023-08-21 14:43:06 +0200

Gui
1

Hi, I don't know BioEBUS, but did you try to copy this in your croco_inter.in.2 ?

diagbioFlux_history_fields: wrtdiabioFlux 50*T

diagbioVSink_history_fields: wrtdiabioVSink 50*T

diagbioGasExc_history_fields: wrtdiabioGasExc 50*T

diagbioFlux_average_fields: wrtdiabioFlux_avg 50*T

diagbioVSink_average_fields: wrtdiabioVSink_avg 50*T

diagbioGasExc_average_fields: wrtdiabioGasExc_avg 50*T

Guillaume

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Error when running with EBUS after compilation, 2nd nesting

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