Hi dear croco users,
I am facing erros when i tried to run the model. So I will post the detail about it. I would like to know if anyone can give me any advices on this. Thanks very much in advance.
- Messages after I run the model:
BENGUELA TEST MODEL
8640 ntimes Total number of timesteps for 3D equations.
30.00 dt Timestep [sec] for 3D equations
60 ndtfast Number of 2D timesteps within each 3D step.
1 ninfo Number of timesteps between runtime diagnostics.
WARNING: Unrecognized keyword: time_stepping_nbq → DISREGARDED.
5.000E+00 theta_s S-coordinate surface control parameter.
8.800E-01 theta_b S-coordinate bottom control parameter.
7.000E+01 Tcline S-coordinate surface/bottom layer width used in
vertical coordinate stretching, meters.
Grid File: CROCO_FILES/croco_grd.nc
Forcing Data File: CROCO_FILES/croco_frc.nc
WARNING: Unrecognized keyword: bulk_forcing → DISREGARDED.
Climatology File: CROCO_FILES/croco_clm.nc
WARNING: Unrecognized keyword: boundary → DISREGARDED.
Initial State File: CROCO_FILES/croco_ini.nc Record: 1
Restart File: CROCO_FILES/croco_rst.nc nrst = 8640 rec/file: -1
History File: CROCO_FILES/croco_his.nc Create new: T nwrt =1728 rec/file = 0
1 ntsavg Starting timestep for the accumulation of output
time-averaged data.
864 navg Number of timesteps between writing of time-averaged
data into averages file.
Averages File: CROCO_FILES/croco_avg.nc rec/file = 0
Fields to be saved in history file: (T/F)
T write zeta free-surface.
T write UBAR 2D U-momentum component.
T write VBAR 2D V-momentum component.
T write U 3D U-momentum component.
T write V 3D V-momentum component.
T write T( 1) Tracer of index 1.
T write T( 2) Tracer of index 2.
F write RHO Density anomaly.
F write Omega Omega vertical velocity.
T write W True vertical velocity.
F write Akv Vertical viscosity.
T write Akt Vertical diffusivity for temperature.
F write Aks Vertical diffusivity for salinity.
F write bvf Brunt Vaisala Frequency.
F write Visc3d Horizontal diffusivity.
T write Hbl Depth of model boundary layer.
T write Hbbl Depth of bottom planetary boundary layer.
T write Bostr Bottom Stress.
F write Bustr U-Bottom Stress.
F write Bvstr V-Bottom Stress.
T write Wstress Wind Stress.
T write U-Wstress comp. U-Wind Stress.
T write V-Wstress comp. V-Wind Stress.
T write Shflx [W/m2] Surface net heat flux
T write Swflx [cm/day] Surface freshwater flux (E-P)
T write Shflx_rsw [W/m2] Short-wave surface radiation
WARNING: Unrecognized keyword: gls_history_fields → DISREGARDED.
Fields to be saved in averages file: (T/F)
T write zeta free-surface.
T write UBAR 2D U-momentum component.
T write VBAR 2D V-momentum component.
T write U 3D U-momentum component.
T write V 3D V-momentum component.
T write T( 1) Tracer of index 1.
T write T( 2) Tracer of index 2.
F write RHO Density anomaly
T write Omega Omega vertical velocity.
T write W True vertical velocity.
F write Akv Vertical viscosity
T write Akt Vertical diffusivity for temperature.
F write Aks Vertical diffusivity for salinity.
F write bvf Brunt Vaisala Frequency.
F write diff3d Horizontal diffusivity
T write Hbl Depth of model boundary layer
T write Hbbl Depth of the bottom planetary boundary layer
T write Bostr Bottom Stress.
F write Bustr U-Bottom Stress.
F write Bvstr V-Bottom Stress.
T write Wstr Wind Stress.
T write U-Wstress comp. U-Wind Stress.
T write V-Wstress comp. V-Wind Stress.
T write Shflx [W/m2] Surface net heat flux.
T write Swflx [cm/day] Surface freshwater flux (E-P)
T write Shflx_rsw [W/m2] Short-wave surface radiation.
WARNING: Unrecognized keyword: gls_averages → DISREGARDED.
1025.0000 rho0 Boussinesq approximation mean density, kg/m3.
0.000E+00 visc2 Horizontal Laplacian mixing coefficient [m2/s]
for momentum.
0.000E+00 tnu2( 1) Horizontal Laplacian mixing coefficient (m2/s)
for tracer 1.
0.000E+00 tnu2( 2) Horizontal Laplacian mixing coefficient (m2/s)
for tracer 2.
0.000E+00 tnu4( 1) Horizontal biharmonic mixing coefficient [m4/s]
for tracer 1.
0.000E+00 tnu4( 2) Horizontal biharmonic mixing coefficient [m4/s]
for tracer 2.
WARNING: Unrecognized keyword: vertical_mixing → DISREGARDED.
0.000E+00 rdrg Linear bottom drag coefficient (m/si).
0.000E+00 rdrg2 Quadratic bottom drag coefficient.
1.000E-02 Zobt Bottom roughness for logarithmic law (m).
1.000E-04 Cdb_min Minimum bottom drag coefficient.
1.000E-01 Cdb_max Maximum bottom drag coefficient.
1.00 gamma2 Slipperiness parameter: free-slip +1, or no-slip -1.
SPONGE_GRID is defined: x_sponge parameter in sponge/nudging
layer is set generically in set_nudgcof.F routine
1.157E-05 tauT_in Nudging coefficients [sec^-1]
3.215E-08 tauT_out Nudging coefficients [sec^-1]
3.858E-06 tauM_in Nudging coefficients [sec^-1]
3.215E-08 tauM_out Nudging coefficients [sec^-1]
WARNING: Unrecognized keyword: diagnostics → DISREGARDED.
WARNING: Unrecognized keyword: diag_avg → DISREGARDED.
WARNING: Unrecognized keyword: diag3D_history_fields → DISREGARDED.
WARNING: Unrecognized keyword: diag2D_history_fields → DISREGARDED.
WARNING: Unrecognized keyword: diag3D_average_fields → DISREGARDED.
WARNING: Unrecognized keyword: diag2D_average_fields → DISREGARDED.
WARNING: Unrecognized keyword: diagnosticsM → DISREGARDED.
WARNING: Unrecognized keyword: diagM_avg → DISREGARDED.
WARNING: Unrecognized keyword: diagM_history_fields → DISREGARDED.
WARNING: Unrecognized keyword: diagM_average_fields → DISREGARDED.
WARNING: Unrecognized keyword: diags_vrt → DISREGARDED.
WARNING: Unrecognized keyword: diags_vrt_avg → DISREGARDED.
WARNING: Unrecognized keyword: diags_vrt_history_fields → DISREGARDED.
WARNING: Unrecognized keyword: diags_vrt_average_fields → DISREGARDED.
WARNING: Unrecognized keyword: diags_ek → DISREGARDED.
WARNING: Unrecognized keyword: diags_ek_avg → DISREGARDED.
WARNING: Unrecognized keyword: diags_ek_history_fields → DISREGARDED.
WARNING: Unrecognized keyword: diags_ek_average_fields → DISREGARDED.
WARNING: Unrecognized keyword: surf → DISREGARDED.
WARNING: Unrecognized keyword: surf_avg → DISREGARDED.
WARNING: Unrecognized keyword: surf_history_fields → DISREGARDED.
WARNING: Unrecognized keyword: surf_average_fields → DISREGARDED.
WARNING: Unrecognized keyword: diags_pv → DISREGARDED.
WARNING: Unrecognized keyword: diags_pv_avg → DISREGARDED.
WARNING: Unrecognized keyword: diags_pv_history_fields → DISREGARDED.
WARNING: Unrecognized keyword: diags_pv_average_fields → DISREGARDED.
WARNING: Unrecognized keyword: diags_eddy → DISREGARDED.
WARNING: Unrecognized keyword: diags_eddy_avg → DISREGARDED.
WARNING: Unrecognized keyword: diags_eddy_history_fields → DISREGARDED.
WARNING: Unrecognized keyword: diags_eddy_average_fields → DISREGARDED.
WARNING: Unrecognized keyword: diagnostics_bio → DISREGARDED.
WARNING: Unrecognized keyword: diagbio_avg → DISREGARDED.
WARNING: Unrecognized keyword: diagbioFlux_history_fields → DISREGARDED.
WARNING: Unrecognized keyword: diagbioVSink_history_fields → DISREGARDED.
WARNING: Unrecognized keyword: diagbioGasExc_history_fields → DISREGARDED.
WARNING: Unrecognized keyword: diagbioFlux_average_fields → DISREGARDED.
WARNING: Unrecognized keyword: diagbioVSink_average_fields → DISREGARDED.
WARNING: Unrecognized keyword: diagbioGasExc_average_fields → DISREGARDED.
WARNING: Unrecognized keyword: biology → DISREGARDED.
WARNING: Unrecognized keyword: wkb_boundary → DISREGARDED.
WARNING: Unrecognized keyword: wkb_wwave → DISREGARDED.
WARNING: Unrecognized keyword: wkb_roller → DISREGARDED.
WARNING: Unrecognized keyword: wave_history_fields → DISREGARDED.
WARNING: Unrecognized keyword: wave_average_fields → DISREGARDED.
WARNING: Unrecognized keyword: wci_history_fields → DISREGARDED.
WARNING: Unrecognized keyword: wci_average_fields → DISREGARDED.
WARNING: Unrecognized keyword: sediments → DISREGARDED.
WARNING: Unrecognized keyword: sediment_history_fields → DISREGARDED.
WARNING: Unrecognized keyword: bbl_history_fields → DISREGARDED.
WARNING: Unrecognized keyword: floats → DISREGARDED.
WARNING: Unrecognized keyword: float_fields → DISREGARDED.
WARNING: Unrecognized keyword: stations → DISREGARDED.
WARNING: Unrecognized keyword: station_fields → DISREGARDED.
WARNING: Unrecognized keyword: psource → DISREGARDED.
WARNING: Unrecognized keyword: psource_ncfile → DISREGARDED.
WARNING: Unrecognized keyword: online → DISREGARDED.
Activated C-preprocessing Options:
REGIONAL
KUROSHIO
OPENMP
OBC_EAST
OBC_WEST
OBC_NORTH
OBC_SOUTH
CURVGRID
SPHERICAL
MASKING
SOLVE3D
UV_COR
UV_ADV
SALINITY
NONLIN_EOS
ANA_DIURNAL_SW
QCORRECTION
SFLX_CORR
CLIMATOLOGY
ZCLIMATOLOGY
M2CLIMATOLOGY
M3CLIMATOLOGY
TCLIMATOLOGY
ZNUDGING
M2NUDGING
M3NUDGING
TNUDGING
UV_HADV_UP3
UV_VADV_SPLINES
TS_HADV_RSUP3
TS_DIF4
TS_VADV_SPLINES
SPONGE
LIMIT_BSTRESS
LMD_MIXING
LMD_SKPP
LMD_BKPP
LMD_RIMIX
LMD_CONVEC
LMD_NONLOCAL
ANA_BSFLUX
ANA_BTFLUX
OBC_M2CHARACT
OBC_M3ORLANSKI
OBC_TORLANSKI
AVERAGES
AVERAGES_K
TS_HADV_C4
MPI_COMM_WORLD
M2FILTER_POWER
TRACERS
TEMPERATURE
HZR
VAR_RHO_2D
SPLIT_EOS
UV_MIX_S
DIF_COEF_3D
TS_MIX_ISO
TS_MIX_IMP
TS_MIX_ISO_FILT
NTRA_T3DMIX
SPONGE_GRID
SPONGE_DIF2
SPONGE_VIS2
LMD_SKPP2005
NF_CLOBBER
NUMBER OF THREADS: 12 BLOCKING: 1 x 12.
Spherical grid detected.
hmin hmax grdmin grdmax Cu_min Cu_max
75.000000 5000.000000 0.106406820E+05 0.117773385E+05 0.00162856 0.01471755
volume= 1.543422154656911800000E+16 open_cross= 4.116860069940998840332E+10
lonmin = 120.00 lonmax = 180.00 latmin = 32.00 latmax = 40.08
Vertical S-coordinate System:
level S-coord Cs-curve at_hmin over_slope at_hmax
32 0.0000000 -0.0000000 -0.000 -0.000 -0.000
31 -0.0312500 -0.0024236 -2.200 -8.168 -14.136
30 -0.0625000 -0.0056323 -4.403 -18.273 -32.142
29 -0.0937500 -0.0099036 -6.612 -31.000 -55.387
28 -0.1250000 -0.0156026 -8.828 -47.250 -85.671
27 -0.1562500 -0.0232047 -11.054 -68.195 -125.337
26 -0.1875000 -0.0333182 -13.292 -95.338 -177.384
25 -0.2187500 -0.0467041 -15.546 -130.555 -245.564
24 -0.2500000 -0.0642819 -17.821 -176.115 -334.410
23 -0.2812500 -0.0871094 -20.123 -234.630 -449.137
22 -0.3125000 -0.1163145 -22.457 -308.881 -595.305
21 -0.3437500 -0.1529579 -24.827 -401.486 -778.145
20 -0.3750000 -0.1978140 -27.239 -514.356 -1001.473
19 -0.4062500 -0.2510854 -29.693 -647.991 -1266.289
18 -0.4375000 -0.3121168 -32.186 -800.773 -1569.361
17 -0.4687500 -0.3792270 -34.709 -968.555 -1902.401
16 -0.5000000 -0.4497843 -37.249 -1144.843 -2252.436
15 -0.5312500 -0.5205810 -39.790 -1321.721 -2603.652
14 -0.5625000 -0.5884150 -42.317 -1491.289 -2940.261
13 -0.5937500 -0.6506727 -44.816 -1647.097 -3249.379
12 -0.6250000 -0.7057025 -47.279 -1785.071 -3522.863
11 -0.6562500 -0.7528925 -49.702 -1903.700 -3757.697
10 -0.6875000 -0.7925021 -52.088 -2003.624 -3955.160
9 -0.7187500 -0.8253784 -54.439 -2086.934 -4119.428
8 -0.7500000 -0.8526718 -56.763 -2156.468 -4256.172
7 -0.7812500 -0.8756196 -59.066 -2215.279 -4371.492
6 -0.8125000 -0.8954108 -61.352 -2266.301 -4471.250
5 -0.8437500 -0.9131218 -63.628 -2312.191 -4560.753
4 -0.8750000 -0.9296993 -65.898 -2355.283 -4644.668
3 -0.9062500 -0.9459713 -68.167 -2397.622 -4727.076
2 -0.9375000 -0.9626718 -70.438 -2441.018 -4811.597
1 -0.9687500 -0.9804698 -72.715 -2487.122 -4901.529
0 -1.0000000 -1.0000000 -75.000 -2537.500 -5000.000
Time splitting: ndtfast = 60 nfast = 82
Maximum grid stiffness ratios: rx0 = 0.28116377967784584 rx1 = 29.661961444291226
GET_INITIAL – Processing data for time = 0.000 record = 1
GET_INITIAL - unable to find variable: hbl
in input NetCDF file: CROCO_FILES/croco_ini.nc ==> Initialized to zero state.
>> CAUTION in case of #define EXACT_RESTART <<
If it is the case
- OK if it is a ‘cold start’ i.e coming from a 3rd-party initial file
- otherwise if it is a ‘hot start’ i.e from a restart file produced by this code:
=> problem: run is not restartable
=> check your initial file
GET_TCLIMA – Read climatology of tracer 1 for time = 345.0
GET_TCLIMA – Read climatology of tracer 1 for time = 15.00
GET_TCLIMA – Read climatology of tracer 2 for time = 345.0
GET_TCLIMA – Read climatology of tracer 2 for time = 15.00
GET_UCLIMA – Read momentum climatology for time = 345.0
GET_UCLIMA – Read momentum climatology for time = 15.00
GET_SSH – Read SSH climatology for time = 345.0
GET_SSH – Read SSH climatology for time = 15.00
GET_SMFLUX – Read surface momentum stresses for time = 345.0
GET_SMFLUX – Read surface momentum stresses for time = 15.00
GET_STFLUX – Read surface flux of tracer 1 for time = 345.0
GET_STFLUX – Read surface flux of tracer 1 for time = 15.00
GET_SST – Read SST and dQdSST fields for time = 345.0
GET_SST – Read SST and dQdSST fields for time = 15.00
GET_STFLUX – Read surface flux of tracer 2 for time = 345.0
GET_STFLUX – Read surface flux of tracer 2 for time = 15.00
GET_SSS – Read SSS fields for time = 345.0
GET_SSS – Read SSS fields for time = 15.00
GET_SRFLUX – Read solar shortwave radiation for time = 345.0
GET_SRFLUX – Read solar shortwave radiation for time = 15.00
DEF_HIS/AVG - Created new netCDF file ‘CROCO_FILES/croco_his.nc’.
WRT_GRID – wrote grid data into file ‘CROCO_FILES/croco_his.nc’.
WRT_HIS – wrote history fields into time record = 1 / 1
MAIN: started time-stepping
STEP time[DAYS] KINETIC_ENRG POTEN_ENRG TOTAL_ENRG NET_VOLUME trd
0 0.00000 0.000000000E+00 5.0060820E+01 5.0060820E+01 1.5434222E+16 4
=======================================
= =
= STEP2D: ABNORMAL JOB END =
= BLOW UP =
= =
VMAX (M/S) =**********
IMAX JMAX = 1 79
IINT IEXT = 1 1
Note: The following floating-point exceptions are signalling: IEEE_INVALID_FLAG
=======================================
= =
= STEP2D: ABNORMAL JOB END =
= BLOW UP =
= =
VMAX (M/S) =**********
IMAX JMAX = 7 11
IINT IEXT = 1 1
Note: The following floating-point exceptions are signalling: IEEE_INVALID_FLAG
=======================================
= =
= STEP2D: ABNORMAL JOB END =
= BLOW UP =
= =
VMAX (M/S) =**********
IMAX JMAX = 5 18
IINT IEXT = 1 1
Note: The following floating-point exceptions are signalling: IEEE_INVALID_FLAG
Program received signal SIGSEGV: Segmentation fault - invalid memory reference.
Backtrace for this error:
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