Early blowing of model simulation

[09CL6010]

I have created grid for North Indian Ocean, boundary and intial files from HYCOM daily data and forcing from ECMWF for ROMS (version 3.7). I started simulation with very basic C-preprocessing Options. But the model is blowing up after 21 time steps. Wheather this is a problem of model configuration or something else?? Any suggestions would be really helpful to me. Thanks in advance.
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Operating system : Linux
CPU/hardware : x86_64
Compiler system : gfortran
Compiler command : /usr/bin/gfortran
Compiler flags : -frepack-arrays -O3 -ffast-math -ffree-form -ffree-line-length-none -ffree-form -ffree-line-length-none -ffree-form -ffree-line-length-none

SVN Root URL : https://www.myroms.org/svn/src/trunk
SVN Revision : 755M

Local Root : /home/user/work/tags/trunk
Header Dir : /home/user/work/tests/bobh2
Header file : bob.h
Analytical Dir: /home/user/work/tests/bobh2

Resolution, Grid 01: 0287x0248x032, Parallel Threads: 1, Tiling: 001x001


Physical Parameters, Grid: 01
=============================

522720 ntimes Number of timesteps for 3-D equations.
60.000 dt Timestep size (s) for 3-D equations.
30 ndtfast Number of timesteps for 2-D equations between
each 3D timestep.
1 ERstr Starting ensemble/perturbation run number.
1 ERend Ending ensemble/perturbation run number.
0 nrrec Number of restart records to read from disk.
T LcycleRST Switch to recycle time-records in restart file.
1440 nRST Number of timesteps between the writing of data
into restart fields.
1 ninfo Number of timesteps between print of information
to standard output.
T ldefout Switch to create a new output NetCDF file(s).
288 nHIS Number of timesteps between the writing fields
into history file.
288 ndefHIS Number of timesteps between creation of new
history files.
1 ntsAVG Starting timestep for the accumulation of output
time-averaged data.
288 nAVG Number of timesteps between the writing of
time-averaged data into averages file.
288 ndefAVG Number of timesteps between creation of new
time-averaged file.
F LuvSponge Turning OFF sponge on horizontal momentum.
F LtracerSponge(01) Turning OFF sponge on tracer 01: temp
F LtracerSponge(02) Turning OFF sponge on tracer 02: salt
1.0000E-06 Akt_bak(01) Background vertical mixing coefficient (m2/s)
for tracer 01: temp
1.0000E-06 Akt_bak(02) Background vertical mixing coefficient (m2/s)
for tracer 02: salt
1.0000E-05 Akv_bak Background vertical mixing coefficient (m2/s)
for momentum.
5.0000E-06 Akk_bak Background vertical mixing coefficient (m2/s)
for turbulent energy.
5.0000E-06 Akp_bak Background vertical mixing coefficient (m2/s)
for turbulent generic statistical field.
3.000 gls_p GLS stability exponent.
1.500 gls_m GLS turbulent kinetic energy exponent.
-1.000 gls_n GLS turbulent length scale exponent.
7.6000E-06 gls_Kmin GLS minimum value of turbulent kinetic energy.
1.0000E-12 gls_Pmin GLS minimum value of dissipation.
5.4770E-01 gls_cmu0 GLS stability coefficient.
1.4400E+00 gls_c1 GLS shear production coefficient.
1.9200E+00 gls_c2 GLS dissipation coefficient.
-4.0000E-01 gls_c3m GLS stable buoyancy production coefficient.
1.0000E+00 gls_c3p GLS unstable buoyancy production coefficient.
1.0000E+00 gls_sigk GLS constant Schmidt number for TKE.
1.3000E+00 gls_sigp GLS constant Schmidt number for PSI.
1400.000 charnok_alpha Charnok factor for Zos calculation.
0.500 zos_hsig_alpha Factor for Zos calculation using Hsig(Awave).
0.250 sz_alpha Factor for Wave dissipation surface tke flux .
100.000 crgban_cw Factor for Craig/Banner surface tke flux.
3.0000E-04 rdrg Linear bottom drag coefficient (m/s).
3.0000E-03 rdrg2 Quadratic bottom drag coefficient.
2.0000E-02 Zob Bottom roughness (m).
2.0000E-02 Zos Surface roughness (m).
5 lmd_Jwt Jerlov water type.
2 Vtransform S-coordinate transformation equation.
4 Vstretching S-coordinate stretching function.
7.0000E+00 theta_s S-coordinate surface control parameter.
2.0000E+00 theta_b S-coordinate bottom control parameter.
250.000 Tcline S-coordinate surface/bottom layer width (m) used
in vertical coordinate stretching.
1025.000 rho0 Mean density (kg/m3) for Boussinesq approximation.
1.000 dstart Time-stamp assigned to model initialization (days).
20050101.00 time_ref Reference time for units attribute (yyyymmdd.dd)
2.0000E+01 Tnudg(01) Nudging/relaxation time scale (days)
for tracer 01: temp
2.0000E+01 Tnudg(02) Nudging/relaxation time scale (days)
for tracer 02: salt
0.0000E+00 Znudg Nudging/relaxation time scale (days)
for free-surface.
0.0000E+00 M2nudg Nudging/relaxation time scale (days)
for 2D momentum.
2.0000E+01 M3nudg Nudging/relaxation time scale (days)
for 3D momentum.
2.0000E+01 obcfac Factor between passive and active
open boundary conditions.
F VolCons(1) NLM western edge boundary volume conservation.
F VolCons(2) NLM southern edge boundary volume conservation.
F VolCons(3) NLM eastern edge boundary volume conservation.
F VolCons(4) NLM northern edge boundary volume conservation.
10.000 T0 Background potential temperature (C) constant.
35.000 S0 Background salinity (PSU) constant.
1.000 gamma2 Slipperiness variable: free-slip (1.0) or
no-slip (-1.0).
F LuvSrc Turning OFF momentum point Sources/Sinks.
F LwSrc Turning OFF volume influx point Sources/Sinks.
F LtracerSrc(01) Turning OFF point Sources/Sinks on tracer 01: temp
F LtracerSrc(02) Turning OFF point Sources/Sinks on tracer 02: salt
F LsshCLM Turning OFF processing of SSH climatology.
F Lm2CLM Turning OFF processing of 2D momentum climatology.
F Lm3CLM Turning OFF processing of 3D momentum climatology.
F LtracerCLM(01) Turning OFF processing of climatology tracer 01: temp
F LtracerCLM(02) Turning OFF processing of climatology tracer 02: salt
F LnudgeM2CLM Turning OFF nudging of 2D momentum climatology.
F LnudgeM3CLM Turning OFF nudging of 3D momentum climatology.
F LnudgeTCLM(01) Turning OFF nudging of climatology tracer 01: temp
F LnudgeTCLM(02) Turning OFF nudging of climatology tracer 02: salt
T Hout(idFsur) Write out free-surface.
T Hout(idUbar) Write out 2D U-momentum component.
T Hout(idVbar) Write out 2D V-momentum component.
T Hout(idUvel) Write out 3D U-momentum component.
T Hout(idVvel) Write out 3D V-momentum component.
T Hout(idu3dE) Write out 3D U-wastward component at RHO-points.
T Hout(idv3dN) Write out 3D V-northward component at RHO-points.
T Hout(idWvel) Write out W-momentum component.
T Hout(idOvel) Write out omega vertical velocity.
T Hout(idTvar) Write out tracer 01: temp
T Hout(idTvar) Write out tracer 02: salt
T Hout(idUsms) Write out surface U-momentum stress.
T Hout(idVsms) Write out surface V-momentum stress.
T Hout(idUbms) Write out bottom U-momentum stress.
T Hout(idVbms) Write out bottom V-momentum stress.
T Hout(idTsur) Write out surface net heat flux.
T Hout(idTsur) Write out surface net salt flux.
T Hout(idSrad) Write out shortwave radiation flux.
T Hout(idDano) Write out density anomaly.
T Hout(idVvis) Write out vertical viscosity: AKv.
T Hout(idTdif) Write out vertical diffusion: AKt(itemp).
T Hout(idMtke) Write out turbulent kinetic energy.
T Hout(idMtls) Write out turbulent generic length-scale.

T Aout(idFsur) Write out averaged free-surface.
T Aout(idUbar) Write out averaged 2D U-momentum component.
T Aout(idVbar) Write out averaged 2D V-momentum component.
T Aout(idUvel) Write out averaged 3D U-momentum component.
T Aout(idVvel) Write out averaged 3D V-momentum component.
T Aout(idWvel) Write out averaged W-momentum component.
T Aout(idOvel) Write out averaged omega vertical velocity.
T Aout(idTvar) Write out averaged tracer 01: temp
T Aout(idTvar) Write out averaged tracer 02: salt

Output/Input Files:

Output Restart File: ./out/rst_bob.nc
Prefix for History Files: ./out/his_bob
Prefix for Averages Files: ./out/avg_bob
Input Grid File: ./in/nio_grid.nc
Input Nonlinear Initial File: ./in/nio_initial.nc
Input Forcing File 01: ./in/bob_sms_era.nc
Input Forcing File 02: ./in/bob_shflux_era.nc
Input Forcing File 03: ./in/bob_swflux_era.nc
Input Forcing File 04: ./in/bob_swrad_era.nc
Input Boundary File: ./in/nio_boundary.nc

Tile partition information for Grid 01: 0287x0248x0032 tiling: 001x001

tile Istr Iend Jstr Jend Npts

0 1 287 1 248 2277632

Tile minimum and maximum fractional coordinates for Grid 01:
(interior points only)

tile Xmin Xmax Ymin Ymax grid

0 0.50 287.50 0.50 249.50 RHO-points

0 0.00 287.00 0.50 249.50 U-points

0 0.50 287.50 0.00 249.00 V-points

Lateral Boundary Conditions: NLM
============================

Variable Grid West Edge South Edge East Edge North Edge
--------- ---- ---------- ---------- ---------- ----------

zeta 1 Chapman Imp Chapman Imp Chapman Imp Closed

ubar 1 Flather Flather Flather Closed

vbar 1 Flather Flather Flather Closed

u 1 Rad + Nud Rad + Nud Rad + Nud Closed

v 1 Rad + Nud Rad + Nud Rad + Nud Closed

temp 1 Rad + Nud Rad + Nud Rad + Nud Closed

salt 1 Rad + Nud Rad + Nud Rad + Nud Closed

tke 1 Gradient Gradient Gradient Closed

Activated C-preprocessing Options:

BOB Indian Ocean simulation 10 KM grid HYCOM daily obc ECMWF fluxes
ANA_BSFLUX Analytical kinematic bottom salinity flux.
ANA_BTFLUX Analytical kinematic bottom temperature flux.
ASSUMED_SHAPE Using assumed-shape arrays.
AVERAGES Writing out time-averaged nonlinear model fields.
CURVGRID Orthogonal curvilinear grid.
DJ_GRADPS Parabolic Splines density Jacobian (Shchepetkin, 2002).
DOUBLE_PRECISION Double precision arithmetic.
GLS_MIXING Generic Length-Scale turbulence closure.
LIMIT_BSTRESS Limit bottom stress to maintain bottom velocity direction.
MASKING Land/Sea masking.
NONLINEAR Nonlinear Model.
NONLIN_EOS Nonlinear Equation of State for seawater.
POWER_LAW Power-law shape time-averaging barotropic filter.
PROFILE Time profiling activated .
K_GSCHEME Third-order upstream advection of TKE fields.
!RST_SINGLE Double precision fields in restart NetCDF file.
SALINITY Using salinity.
SOLAR_SOURCE Solar Radiation Source Term.
SOLVE3D Solving 3D Primitive Equations.
SPLINES Conservative parabolic spline reconstruction.
TS_C4HADVECTION Fourth-order centered horizontal advection of tracers.
TS_C4VADVECTION Fourth-order centered vertical advection of tracers.
UV_ADV Advection of momentum.
UV_COR Coriolis term.
UV_U3HADVECTION Third-order upstream horizontal advection of 3D momentum.
UV_C4VADVECTION Fourth-order centered vertical advection of momentum.
UV_LDRAG Linear bottom stress.
VAR_RHO_2D Variable density barotropic mode.

Process Information:

Thread # 0 (pid= 2399) is active.

INITIAL: Configuring and initializing forward nonlinear model ...
*******

Vertical S-coordinate System, Grid 01:

level S-coord Cs-curve Z at hmin at hc half way at hmax

32 0.0000000 0.0000000 0.000 0.000 0.000 0.000
31 -0.0312500 -0.0001015 -1.805 -3.919 -7.249 -7.832
30 -0.0625000 -0.0004109 -3.613 -7.864 -14.926 -16.546
29 -0.0937500 -0.0009428 -5.425 -11.837 -23.060 -26.207
28 -0.1250000 -0.0017224 -7.241 -15.840 -31.703 -36.920
27 -0.1562500 -0.0027867 -9.063 -19.880 -40.931 -48.843
26 -0.1875000 -0.0041860 -10.890 -23.961 -50.848 -62.189
25 -0.2187500 -0.0059860 -12.724 -28.092 -61.589 -77.239
24 -0.2500000 -0.0082712 -14.566 -32.284 -73.326 -94.350
23 -0.2812500 -0.0111480 -16.419 -36.550 -86.280 -113.975
22 -0.3125000 -0.0147496 -18.284 -40.906 -100.723 -136.681
21 -0.3437500 -0.0192413 -20.165 -45.374 -116.996 -163.168
20 -0.3750000 -0.0248266 -22.064 -49.978 -135.517 -194.303
19 -0.4062500 -0.0317554 -23.987 -54.751 -156.799 -231.148
18 -0.4375000 -0.0403320 -25.938 -59.729 -181.467 -274.995
17 -0.4687500 -0.0509247 -27.925 -64.959 -210.280 -327.409
16 -0.5000000 -0.0639753 -29.953 -70.497 -244.145 -390.268
15 -0.5312500 -0.0800085 -32.034 -76.407 -284.140 -465.802
14 -0.5625000 -0.0996389 -34.176 -82.767 -331.528 -556.623
13 -0.5937500 -0.1235742 -36.394 -89.666 -387.765 -665.737
12 -0.6250000 -0.1526095 -38.699 -97.201 -454.484 -796.524
11 -0.6562500 -0.1876096 -41.108 -105.482 -533.463 -952.659
10 -0.6875000 -0.2294704 -43.635 -114.621 -626.543 -1137.949
9 -0.7187500 -0.2790515 -46.296 -124.725 -735.492 -1356.046
8 -0.7500000 -0.3370698 -49.103 -135.884 -861.782 -1609.998
7 -0.7812500 -0.4039469 -52.064 -148.150 -1006.280 -1901.595
6 -0.8125000 -0.4796058 -55.176 -161.513 -1168.828 -2230.512
5 -0.8437500 -0.5632305 -58.426 -175.873 -1347.749 -2593.279
4 -0.8750000 -0.6530234 -61.783 -191.003 -1539.347 -2982.258
3 -0.9062500 -0.7460330 -65.196 -206.535 -1737.557 -3384.908
2 -0.9375000 -0.8381633 -68.593 -221.958 -1933.960 -3783.820
1 -0.9687500 -0.9244936 -71.890 -236.655 -2118.442 -4158.085
0 -1.0000000 -1.0000000 -75.000 -250.000 -2280.677 -4486.353

Time Splitting Weights for Grid 01: ndtfast = 30 nfast = 42
==================================

Primary Secondary Accumulated to Current Step

1-0.0008094437383769 0.0333333333333333-0.0008094437383769 0.0333333333333333
2-0.0014053566728197 0.0333603147912792-0.0022148004111966 0.0666936481246126
3-0.0017877524645903 0.0334071600137066-0.0040025528757869 0.1001008081383191
4-0.0019566842408176 0.0334667517625262-0.0059592371166046 0.1335675599008453
5-0.0019122901320372 0.0335319745705535-0.0078715272486418 0.1670995344713988
6-0.0016548570247459 0.0335957175749547-0.0095263842733877 0.2006952520463536
7-0.0011849025289723 0.0336508794757796-0.0107112868023600 0.2343461315221331
8-0.0005032751608631 0.0336903762267453-0.0112145619632232 0.2680365077488784
9 0.0003887272597151 0.0337071520654408-0.0108258347035081 0.3017436598143192
10 0.0014892209965583 0.0336941944901169-0.0093366137069498 0.3354378543044362
11 0.0027955815694920 0.0336445537902317-0.0065410321374578 0.3690824080946679
12 0.0043042707117221 0.0335513677379153-0.0022367614257356 0.4026337758325831
13 0.0060106451121704 0.0334078920475245 0.0037738836864348 0.4360416678801076
14 0.0079087469427945 0.0332075372104522 0.0116826306292293 0.4692492050905598
15 0.0099910761708920 0.0329439123123590 0.0216737068001213 0.5021931174029188
16 0.0122483446563884 0.0326108764399960 0.0339220514565097 0.5348039938429148
17 0.0146692120341107 0.0322025982847830 0.0485912634906204 0.5670065921276978
18 0.0172400033810439 0.0317136245503127 0.0658312668716643 0.5987202166780105
19 0.0199444086685725 0.0311389577709445 0.0857756755402368 0.6298591744489550
20 0.0227631639997064 0.0304741441486588 0.1085388395399432 0.6603333185976138
21 0.0256737146312911 0.0297153720153352 0.1342125541712342 0.6900486906129490
22 0.0286498597812016 0.0288595815276255 0.1628624139524359 0.7189082721405746
23 0.0316613792205220 0.0279045862015855 0.1945237931729578 0.7468128583421600
24 0.0346736416507075 0.0268492068942347 0.2291974348236653 0.7736620652363948
25 0.0376471948657328 0.0256934188392112 0.2668446296893981 0.7993554840756060
26 0.0405373376992232 0.0244385123436867 0.3073819673886213 0.8237939964192927
27 0.0432936737565710 0.0230872677537126 0.3506756411451924 0.8468812641730054
28 0.0458596469320356 0.0216441452951603 0.3965352880772280 0.8685254094681656
29 0.0481720587108284 0.0201154903974257 0.4447073467880565 0.8886408998655914
30 0.0501605672561820 0.0185097551070648 0.4948679140442384 0.9071506549726561
31 0.0517471682814030 0.0168377361985254 0.5466150823256415 0.9239883911711815
32 0.0528456577069106 0.0151128305891453 0.5994607400325521 0.9391012217603267
33 0.0533610761022577 0.0133513086655816 0.6528218161348098 0.9524525304259084
34 0.0531891349131379 0.0115726061288397 0.7060109510479478 0.9640251365547481
35 0.0522156244733761 0.0097996349650684 0.7582265755213239 0.9738247715198165
36 0.0503158038019030 0.0080591141492892 0.8085423793232269 0.9818838856691057
37 0.0473537721847153 0.0063819206892258 0.8558961515079423 0.9882658063583315
38 0.0431818225418188 0.0048034616164019 0.8990779740497611 0.9930692679747334
39 0.0376397765791564 0.0033640675316746 0.9367177506289175 0.9964333355064080
40 0.0305543017255206 0.0021094083123694 0.9672720523544381 0.9985427438187774
41 0.0217382098544504 0.0010909315881854 0.9890102622088885 0.9996336754069628
42 0.0109897377911118 0.0003663245930371 1.0000000000000004 0.9999999999999999

ndtfast, nfast = 30 42 nfast/ndtfast = 1.40000

Centers of gravity and integrals (values must be 1, 1, approx 1/2, 1, 1):

1.000000000000 1.047601458608 0.523800729304 1.000000000000 1.000000000000

Power filter parameters, Fgamma, gamma = 0.28400 0.18933

Metrics information for Grid 01:
===============================

Minimum X-grid spacing, DXmin = 8.45904839E+00 km
Maximum X-grid spacing, DXmax = 9.23851059E+00 km
Minimum Y-grid spacing, DYmin = 8.46654806E+00 km
Maximum Y-grid spacing, DYmax = 9.23803707E+00 km
Minimum Z-grid spacing, DZmin = 1.80464157E+00 m
Maximum Z-grid spacing, DZmax = 4.02649068E+02 m

Minimum barotropic Courant Number = 8.30461108E-03
Maximum barotropic Courant Number = 6.42329179E-02
Maximum Coriolis Courant Number = 3.37046112E-03


NLM: GET_STATE - Read state initial conditions, t = 1 00:00:00
(Grid 01, File: nio_initial.nc, Rec=0001, Index=1)
- free-surface
(Min = 0.00000000E+00 Max = 7.27000058E-01)
- vertically integrated u-momentum component
(Min = -5.15692831E-01 Max = 3.95363075E-01)
- vertically integrated v-momentum component
(Min = -5.12753684E-01 Max = 4.60237403E-01)
- u-momentum component
(Min = -1.18300009E+00 Max = 7.77000010E-01)
- v-momentum component
(Min = -9.75000024E-01 Max = 9.53000069E-01)
- potential temperature
(Min = -2.23200035E+00 Max = 3.12929993E+01)
- salinity
(Min = 0.00000000E+00 Max = 3.65000000E+01)
GET_2DFLD - surface u-momentum stress, t = 0 22:30:00
(Rec=0000008, Index=1, File: bob_sms_era.nc)
(Tmin= 0.0625 Tmax= 2190.9375)
(Min = -2.78011231E-04 Max = 1.99272034E-04)
GET_2DFLD - surface v-momentum stress, t = 0 22:30:00
(Rec=0000008, Index=1, File: bob_sms_era.nc)
(Tmin= 0.0625 Tmax= 2190.9375)
(Min = -2.44697013E-04 Max = 1.37507575E-04)
GET_2DFLD - solar shortwave radiation flux, t = 0 22:30:00
(Rec=0000008, Index=1, File: bob_swrad_era.nc)
(Tmin= 0.0625 Tmax= 2190.9375)
(Min = 0.00000000E+00 Max = 3.96908503E-07)
GET_2DFLD - surface net heat flux, t = 0 22:30:00
(Rec=0000008, Index=1, File: bob_shflux_era.nc)
(Tmin= 0.0625 Tmax= 2190.9375)
(Min = -1.15957530E-04 Max = 2.91507719E-07)
GET_2DFLD - surface net freswater flux, (E-P), t = 0 22:30:00
(Rec=0000008, Index=1, File: bob_swflux_era.nc)
(Tmin= 0.0625 Tmax= 2190.9375)
(Min = -4.77261066E-07 Max = 1.32811036E-07)
GET_NGFLD - free-surface western boundary condition, t = 1 00:00:00
(Rec=0000002, Index=2, File: nio_boundary.nc)
(Tmin= 0.0000 Tmax= 364.0000)
(Min = 0.00000000E+00 Max = 5.12000024E-01)
GET_NGFLD - free-surface eastern boundary condition, t = 1 00:00:00
(Rec=0000002, Index=2, File: nio_boundary.nc)
(Tmin= 0.0000 Tmax= 364.0000)
(Min = 0.00000000E+00 Max = 4.57000017E-01)
GET_NGFLD - free-surface southern boundary condition, t = 1 00:00:00
(Rec=0000002, Index=2, File: nio_boundary.nc)
(Tmin= 0.0000 Tmax= 364.0000)
(Min = 0.00000000E+00 Max = 4.77000028E-01)
GET_NGFLD - 2D u-momentum western boundary condition, t = 1 00:00:00
(Rec=0000002, Index=2, File: nio_boundary.nc)
(Tmin= 0.0000 Tmax= 364.0000)
(Min = -4.06101435E-01 Max = 5.34295142E-02)
GET_NGFLD - 2D v-momentum western boundary condition, t = 1 00:00:00
(Rec=0000002, Index=2, File: nio_boundary.nc)
(Tmin= 0.0000 Tmax= 364.0000)
(Min = -2.54630931E-02 Max = 4.60237414E-01)
GET_NGFLD - 2D u-momentum eastern boundary condition, t = 1 00:00:00
(Rec=0000002, Index=2, File: nio_boundary.nc)
(Tmin= 0.0000 Tmax= 364.0000)
(Min = -3.50891352E-02 Max = 2.02111024E-02)
GET_NGFLD - 2D v-momentum eastern boundary condition, t = 1 00:00:00
(Rec=0000002, Index=2, File: nio_boundary.nc)
(Tmin= 0.0000 Tmax= 364.0000)
(Min = -3.29293194E-03 Max = 6.41376600E-02)
GET_NGFLD - 2D u-momentum southern boundary condition, t = 1 00:00:00
(Rec=0000002, Index=2, File: nio_boundary.nc)
(Tmin= 0.0000 Tmax= 364.0000)
(Min = -9.11614746E-02 Max = 8.37161317E-02)
GET_NGFLD - 2D v-momentum southern boundary condition, t = 1 00:00:00
(Rec=0000002, Index=2, File: nio_boundary.nc)
(Tmin= 0.0000 Tmax= 364.0000)
(Min = -1.45010501E-01 Max = 7.72403330E-02)
GET_NGFLD - 3D u-momentum western boundary condition, t = 1 00:00:00
(Rec=0000002, Index=2, File: nio_boundary.nc)
(Tmin= 0.0000 Tmax= 364.0000)
(Min = -8.49000037E-01 Max = 4.97000009E-01)
GET_NGFLD - 3D v-momentum western boundary condition, t = 1 00:00:00
(Rec=0000002, Index=2, File: nio_boundary.nc)
(Tmin= 0.0000 Tmax= 364.0000)
(Min = -4.53000009E-01 Max = 6.06000006E-01)
GET_NGFLD - 3D u-momentum eastern boundary condition, t = 1 00:00:00
(Rec=0000002, Index=2, File: nio_boundary.nc)
(Tmin= 0.0000 Tmax= 364.0000)
(Min = -2.49000013E-01 Max = 4.30000015E-02)
GET_NGFLD - 3D v-momentum eastern boundary condition, t = 1 00:00:00
(Rec=0000002, Index=2, File: nio_boundary.nc)
(Tmin= 0.0000 Tmax= 364.0000)
(Min = -7.00000003E-02 Max = 1.27000004E-01)
GET_NGFLD - 3D u-momentum southern boundary condition, t = 1 00:00:00
(Rec=0000002, Index=2, File: nio_boundary.nc)
(Tmin= 0.0000 Tmax= 364.0000)
(Min = -5.59000015E-01 Max = 4.12000030E-01)
GET_NGFLD - 3D v-momentum southern boundary condition, t = 1 00:00:00
(Rec=0000002, Index=2, File: nio_boundary.nc)
(Tmin= 0.0000 Tmax= 364.0000)
(Min = -5.39000034E-01 Max = 7.46000051E-01)
GET_NGFLD - temperature western boundary condition, t = 1 00:00:00
(Rec=0000002, Index=2, File: nio_boundary.nc)
(Tmin= 0.0000 Tmax= 364.0000)
(Min = 0.00000000E+00 Max = 2.88720016E+01)
GET_NGFLD - salinity western boundary condition, t = 1 00:00:00
(Rec=0000002, Index=2, File: nio_boundary.nc)
(Tmin= 0.0000 Tmax= 364.0000)
(Min = 0.00000000E+00 Max = 3.60429993E+01)
GET_NGFLD - temperature eastern boundary condition, t = 1 00:00:00
(Rec=0000002, Index=2, File: nio_boundary.nc)
(Tmin= 0.0000 Tmax= 364.0000)
(Min = 0.00000000E+00 Max = 2.95240002E+01)
GET_NGFLD - salinity eastern boundary condition, t = 1 00:00:00
(Rec=0000002, Index=2, File: nio_boundary.nc)
(Tmin= 0.0000 Tmax= 364.0000)
(Min = 0.00000000E+00 Max = 3.19790001E+01)
GET_NGFLD - temperature southern boundary condition, t = 1 00:00:00
(Rec=0000002, Index=2, File: nio_boundary.nc)
(Tmin= 0.0000 Tmax= 364.0000)
(Min = 0.00000000E+00 Max = 3.08530006E+01)
GET_NGFLD - salinity southern boundary condition, t = 1 00:00:00
(Rec=0000002, Index=2, File: nio_boundary.nc)
(Tmin= 0.0000 Tmax= 364.0000)
(Min = 0.00000000E+00 Max = 3.60220032E+01)

Basin information for Grid 01:

Maximum grid stiffness ratios: rx0 = 1.962070E-01 (Beckmann and Haidvogel)
rx1 = 6.018224E+00 (Haney)

Initial basin volumes: TotVolume = 7.6097767360E+15 m3
MinVolume = 1.3172781943E+08 m3
MaxVolume = 3.4360845197E+10 m3
Max/Min = 2.6084729365E+02

NL ROMS/TOMS: started time-stepping: (Grid: 01 TimeSteps: 00000001 - 00522720)

GET_2DFLD - surface u-momentum stress, t = 1 01:30:00
(Rec=0000009, Index=2, File: bob_sms_era.nc)
(Tmin= 0.0625 Tmax= 2190.9375)
(Min = -3.85931555E-04 Max = 2.59847245E-04)
GET_2DFLD - surface v-momentum stress, t = 1 01:30:00
(Rec=0000009, Index=2, File: bob_sms_era.nc)
(Tmin= 0.0625 Tmax= 2190.9375)
(Min = -2.98971634E-04 Max = 1.48163594E-04)
GET_2DFLD - solar shortwave radiation flux, t = 1 01:30:00
(Rec=0000009, Index=2, File: bob_swrad_era.nc)
(Tmin= 0.0625 Tmax= 2190.9375)
(Min = 2.85486879E-06 Max = 8.06676692E-05)
GET_2DFLD - surface net heat flux, t = 1 01:30:00
(Rec=0000009, Index=2, File: bob_shflux_era.nc)
(Tmin= 0.0625 Tmax= 2190.9375)
(Min = -4.12584367E-05 Max = 2.30275818E-05)
GET_2DFLD - surface net freswater flux, (E-P), t = 1 01:30:00
(Rec=0000009, Index=2, File: bob_swflux_era.nc)
(Tmin= 0.0625 Tmax= 2190.9375)
(Min = -3.01331672E-07 Max = 1.19216983E-07)
GET_NGFLD - free-surface western boundary condition, t = 2 00:00:00
(Rec=0000003, Index=1, File: nio_boundary.nc)
(Tmin= 0.0000 Tmax= 364.0000)
(Min = 0.00000000E+00 Max = 4.99000013E-01)
GET_NGFLD - free-surface eastern boundary condition, t = 2 00:00:00
(Rec=0000003, Index=1, File: nio_boundary.nc)
(Tmin= 0.0000 Tmax= 364.0000)
(Min = 0.00000000E+00 Max = 4.05000031E-01)
GET_NGFLD - free-surface southern boundary condition, t = 2 00:00:00
(Rec=0000003, Index=1, File: nio_boundary.nc)
(Tmin= 0.0000 Tmax= 364.0000)
(Min = 0.00000000E+00 Max = 4.54000026E-01)
GET_NGFLD - 2D u-momentum western boundary condition, t = 2 00:00:00
(Rec=0000003, Index=1, File: nio_boundary.nc)
(Tmin= 0.0000 Tmax= 364.0000)
(Min = -3.78326416E-01 Max = 5.61754405E-02)
GET_NGFLD - 2D v-momentum western boundary condition, t = 2 00:00:00
(Rec=0000003, Index=1, File: nio_boundary.nc)
(Tmin= 0.0000 Tmax= 364.0000)
(Min = -7.94725865E-02 Max = 3.72756958E-01)
GET_NGFLD - 2D u-momentum eastern boundary condition, t = 2 00:00:00
(Rec=0000003, Index=1, File: nio_boundary.nc)
(Tmin= 0.0000 Tmax= 364.0000)
(Min = -4.32398543E-02 Max = 1.46310069E-02)
GET_NGFLD - 2D v-momentum eastern boundary condition, t = 2 00:00:00
(Rec=0000003, Index=1, File: nio_boundary.nc)
(Tmin= 0.0000 Tmax= 364.0000)
(Min = 0.00000000E+00 Max = 7.72477016E-02)
GET_NGFLD - 2D u-momentum southern boundary condition, t = 2 00:00:00
(Rec=0000003, Index=1, File: nio_boundary.nc)
(Tmin= 0.0000 Tmax= 364.0000)
(Min = -1.09961316E-01 Max = 8.95321369E-02)
GET_NGFLD - 2D v-momentum southern boundary condition, t = 2 00:00:00
(Rec=0000003, Index=1, File: nio_boundary.nc)
(Tmin= 0.0000 Tmax= 364.0000)
(Min = -1.35742590E-01 Max = 8.50378126E-02)
GET_NGFLD - 3D u-momentum western boundary condition, t = 2 00:00:00
(Rec=0000003, Index=1, File: nio_boundary.nc)
(Tmin= 0.0000 Tmax= 364.0000)
(Min = -9.37000036E-01 Max = 4.79000032E-01)
GET_NGFLD - 3D v-momentum western boundary condition, t = 2 00:00:00
(Rec=0000003, Index=1, File: nio_boundary.nc)
(Tmin= 0.0000 Tmax= 364.0000)
(Min = -3.12000006E-01 Max = 4.87000018E-01)
GET_NGFLD - 3D u-momentum eastern boundary condition, t = 2 00:00:00
(Rec=0000003, Index=1, File: nio_boundary.nc)
(Tmin= 0.0000 Tmax= 364.0000)
(Min = -1.58000007E-01 Max = 4.60000038E-02)
GET_NGFLD - 3D v-momentum eastern boundary condition, t = 2 00:00:00
(Rec=0000003, Index=1, File: nio_boundary.nc)
(Tmin= 0.0000 Tmax= 364.0000)
(Min = -1.40000004E-02 Max = 1.44000009E-01)
GET_NGFLD - 3D u-momentum southern boundary condition, t = 2 00:00:00
(Rec=0000003, Index=1, File: nio_boundary.nc)
(Tmin= 0.0000 Tmax= 364.0000)
(Min = -8.55000019E-01 Max = 3.27000022E-01)
GET_NGFLD - 3D v-momentum southern boundary condition, t = 2 00:00:00
(Rec=0000003, Index=1, File: nio_boundary.nc)
(Tmin= 0.0000 Tmax= 364.0000)
(Min = -4.97000009E-01 Max = 8.88000071E-01)
GET_NGFLD - temperature western boundary condition, t = 2 00:00:00
(Rec=0000003, Index=1, File: nio_boundary.nc)
(Tmin= 0.0000 Tmax= 364.0000)
(Min = 0.00000000E+00 Max = 2.88680000E+01)
GET_NGFLD - salinity western boundary condition, t = 2 00:00:00
(Rec=0000003, Index=1, File: nio_boundary.nc)
(Tmin= 0.0000 Tmax= 364.0000)
(Min = 0.00000000E+00 Max = 3.59599991E+01)
GET_NGFLD - temperature eastern boundary condition, t = 2 00:00:00
(Rec=0000003, Index=1, File: nio_boundary.nc)
(Tmin= 0.0000 Tmax= 364.0000)
(Min = 0.00000000E+00 Max = 2.93870010E+01)
GET_NGFLD - salinity eastern boundary condition, t = 2 00:00:00
(Rec=0000003, Index=1, File: nio_boundary.nc)
(Tmin= 0.0000 Tmax= 364.0000)
(Min = 0.00000000E+00 Max = 3.19920006E+01)
GET_NGFLD - temperature southern boundary condition, t = 2 00:00:00
(Rec=0000003, Index=1, File: nio_boundary.nc)
(Tmin= 0.0000 Tmax= 364.0000)
(Min = 0.00000000E+00 Max = 3.03069992E+01)
GET_NGFLD - salinity southern boundary condition, t = 2 00:00:00
(Rec=0000003, Index=1, File: nio_boundary.nc)
(Tmin= 0.0000 Tmax= 364.0000)
(Min = 0.00000000E+00 Max = 3.63619995E+01)

STEP Day HH:MM:SS KINETIC_ENRG POTEN_ENRG TOTAL_ENRG NET_VOLUME
C => (i,j,k) Cu Cv Cw Max Speed

0 1 00:00:00 4.478275E-03 1.504438E+04 1.504438E+04 7.778290E+15
(184,032,31) 5.090955E-03 4.816599E-03 0.000000E+00 1.221553E+00
DEF_HIS - creating history file, Grid 01: ./out/his_bob_0001.nc
WRT_HIS - wrote history fields (Index=1,1) into time record = 0000001
1 1 00:01:00 5.679666E-03 1.504431E+04 1.504431E+04 7.778289E+15
(060,142,17) 6.748350E-04 2.566448E-03 3.438974E-02 1.581672E+00
2 1 00:02:00 9.010987E-03 1.504289E+04 1.504290E+04 7.778290E+15
(205,016,32) 1.423695E-03 6.142699E-04 6.573668E-01 3.000813E+00
3 1 00:03:00 1.170062E-02 1.504258E+04 1.504259E+04 7.778291E+15
(205,014,32) 3.307558E-04 2.571483E-03 4.784019E-01 3.537794E+00
4 1 00:04:00 1.660126E-02 1.504237E+04 1.504239E+04 7.778293E+15
(206,014,32) 5.248648E-04 9.366620E-04 5.655860E-01 4.286101E+00
5 1 00:05:00 2.486249E-02 1.504220E+04 1.504222E+04 7.778295E+15
(207,015,32) 1.300270E-03 1.109080E-03 5.432551E-01 2.688875E+00
6 1 00:06:00 3.647173E-02 1.504204E+04 1.504208E+04 7.778299E+15
(208,015,32) 1.842162E-03 9.927156E-04 4.996502E-01 3.477994E+00
7 1 00:07:00 5.135169E-02 1.504187E+04 1.504192E+04 7.778302E+15
(209,015,32) 7.008302E-04 8.492815E-04 3.922878E-01 4.431803E+00
8 1 00:08:00 6.949861E-02 1.504168E+04 1.504175E+04 7.778307E+15
(208,004,19) 5.925429E-03 2.077240E-03 3.394516E-01 5.375570E+00
9 1 00:09:00 8.970888E-02 1.504147E+04 1.504156E+04 7.778312E+15
(208,004,20) 6.477176E-03 2.515493E-03 4.406115E-01 6.301034E+00
10 1 00:10:00 1.118580E-01 1.504124E+04 1.504135E+04 7.778317E+15
(208,004,19) 7.500007E-03 2.392687E-03 4.837994E-01 7.191229E+00
11 1 00:11:00 1.349221E-01 1.504099E+04 1.504113E+04 7.778324E+15
(208,004,20) 7.932112E-03 2.824831E-03 5.980603E-01 8.234773E+00
12 1 00:12:00 1.579938E-01 1.504071E+04 1.504087E+04 7.778332E+15
(208,004,20) 8.373143E-03 2.918280E-03 6.997225E-01 9.291995E+00
13 1 00:13:00 1.814429E-01 1.504040E+04 1.504058E+04 7.778341E+15
(208,004,19) 9.094129E-03 2.785616E-03 7.939590E-01 1.028169E+01
14 1 00:14:00 2.038397E-01 1.504004E+04 1.504025E+04 7.778351E+15
(208,004,19) 9.538619E-03 2.795495E-03 9.074866E-01 1.127502E+01
15 1 00:15:00 2.234117E-01 1.503964E+04 1.503986E+04 7.778362E+15
(208,004,19) 9.730678E-03 2.704653E-03 1.036599E+00 1.218363E+01
16 1 00:16:00 2.416807E-01 1.503921E+04 1.503945E+04 7.778375E+15
(208,004,19) 9.589061E-03 2.514530E-03 1.191844E+00 1.275301E+01
17 1 00:17:00 2.587744E-01 1.503876E+04 1.503902E+04 7.778388E+15
(208,004,19) 9.189085E-03 2.225087E-03 1.337852E+00 1.357701E+01
18 1 00:18:00 2.773618E-01 1.503831E+04 1.503859E+04 7.778401E+15
(208,004,19) 8.428397E-03 1.800376E-03 1.524178E+00 1.479481E+01
19 1 00:19:00 2.964281E-01 1.503787E+04 1.503816E+04 7.778415E+15
(208,004,19) 7.286367E-03 1.021140E-03 1.712949E+00 1.656331E+01
20 1 00:20:00 3.155707E-01 1.503745E+04 1.503776E+04 7.778430E+15
(208,004,18) 5.375559E-03 1.905486E-04 1.903025E+00 1.831610E+01
21 1 00:21:00 3.349368E-01 1.503765E+04 1.503799E+04 7.778445E+15
(208,004,19) 5.552737E-03 5.508380E-04 2.088523E+00 1.962397E+01

Blowing-up: Saving latest model state into RESTART file

WRT_RST - wrote re-start fields (Index=1,2) into time record = 0000001

Elapsed CPU time (seconds):

Thread # 0 CPU: 61.831
Total: 61.831

Nonlinear model elapsed time profile:

Allocation and array initialization .............. 0.326 ( 0.5272 %)
Ocean state initialization ....................... 0.074 ( 0.1204 %)
Reading of input data ............................ 0.370 ( 0.5988 %)
Processing of input data ......................... 0.050 ( 0.0804 %)
Processing of output time averaged data .......... 0.747 ( 1.2085 %)
Computation of vertical boundary conditions ...... 0.019 ( 0.0310 %)
Computation of global information integrals ...... 0.667 ( 1.0793 %)
Writing of output data ........................... 0.540 ( 0.8728 %)
Model 2D kernel .................................. 16.932 (27.3840 %)
2D/3D coupling, vertical metrics ................. 0.713 ( 1.1530 %)
Omega vertical velocity .......................... 0.470 ( 0.7604 %)
Equation of state for seawater ................... 1.233 ( 1.9934 %)
GLS vertical mixing parameterization ............. 21.703 (35.0996 %)
3D equations right-side terms .................... 3.312 ( 5.3573 %)
3D equations predictor step ...................... 5.842 ( 9.4475 %)
Pressure gradient ................................ 2.191 ( 3.5439 %)
Corrector time-step for 3D momentum .............. 2.414 ( 3.9036 %)
Corrector time-step for tracers .................. 3.022 ( 4.8883 %)
Total: 60.625 98.0494

All percentages are with respect to total time = 61.831

ROMS/TOMS - Output NetCDF summary for Grid 01:
number of time records written in HISTORY file = 00000001
number of time records written in RESTART file = 00000001

Analytical header files used:

ROMS/Functionals/ana_btflux.h

ROMS/TOMS: DONE... Sunday - January 24, 2016 - 11:55:33 AM

[kate]

This is my stock response when I don't immediately see anything in your output: https://www.myroms.org/wiki/Frequently_ ... _in_diag.F

[smchen]

For my case, the first option to be tuned is the time step size. But your size is small enough (60s) and, considering your timesteps, reducing time step size is costly in computation.

Two suggestions you can try. If you have very shallow water depth at some places, try turning on WET_DRY. Then, if you find instability pattern in the velocity or scalar fields, try adding horizontal mixing (UV_VIS2 or TS_DIF2 or both). Instability pattern looks like regular, non-natural texture in the horizontal plane view. Horizontal mixing can damp these instabilities, but the sensitivity test of the mixing coefficients should be carried out to make sure the horizontal mixing not removing too much fine scale features.

--Shi-Ming

[susonic]

My suggestions are
1.Try different horizontal advection scheme (say U3 instead of C4)
2.Try quadratic drag instead of linear drag(UV_QDRAG instead of UV_LDRAG)
3.Try different vertical turbulent scheme(say LMD or MY2.5 instead of GLS)
-JH

[kate]

You probably do need more lateral smoothing, as provided by the U3 advection and/or the UV_VIS2. However, the first thing you should learn to do is look at the restart file to see what the fields are looking like. I use ncview to get a quick and dirty look at things.