ROMS Error: Abnormal Termination NETCDF OUTPUT

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prakrati
Posts: 24
Joined: Thu Oct 21, 2010 9:35 pm
Location: CRL

ROMS Error: Abnormal Termination NETCDF OUTPUT

#1 Post by prakrati »

Dear Sir/Madam

This is to request that when I am running ROMS with intel mpi for 256 ranks it gives me Abnormal Termination NETCDF OUTPUT. I am using NETCDF 4 with HDF5.
The output is as follows:

Prologue finished, program starts:

Process Information:

Benchmark Test, Idealized Southern Ocean, Large Grid

Operating system : Linux
CPU/hardware : x86_64
Compiler system : ifort
Compiler command : /opt/intel/mpi/4.0.0.028/intel64/bin/mpiifort
Compiler flags : -heap-arrays -ip -O3 -xW -free

Input Script : /panfs/home/Xykaran/ROMS/roms-3.1/ocean_benchmark4.in

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

Local Root : /panfs/panfs2/home2/Xykaran/ROMS/roms-3.1
Header Dir : /panfs/panfs2/home2/Xykaran/ROMS/roms-3.1/ROMS/Include
Header file : benchmark.h
Analytical Dir: /panfs/panfs2/home2/Xykaran/ROMS/roms-3.1/ROMS/Functionals

Resolution, Grid 01: 4192x0272x030, Parallel Nodes: 256, Tiling: 128x002


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

17532 ntimes Number of timesteps for 3-D equations.
150.000 dt Timestep size (s) for 3-D equations.
20 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.
17532 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).
17532 nHIS Number of timesteps between the writing fields
into history file.
17532 ndefHIS Number of timesteps between creation of new
history files.
5.0000E+02 tnu2(01) Horizontal, harmonic mixing coefficient (m2/s)
for tracer 01: temp
5.0000E+02 tnu2(02) Horizontal, harmonic mixing coefficient (m2/s)
for tracer 02: salt
5.0000E+03 visc2 Horizontal, harmonic mixing coefficient (m2/s)
for momentum.
1.0000E-05 Akt_bak(01) Background vertical mixing coefficient (m2/s)
for tracer 01: temp
1.0000E-05 Akt_bak(02) Background vertical mixing coefficient (m2/s)
for tracer 02: salt
1.0000E-04 Akv_bak Background vertical mixing coefficient (m2/s)
for momentum.
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).
1.0000E+01 blk_ZQ Height (m) of surface air humidity measurement.
1.0000E+01 blk_ZT Height (m) of surface air temperature measurement.
1.0000E+01 blk_ZW Height (m) of surface winds measurement.
1 lmd_Jwt Jerlov water type.
1 Vtransform S-coordinate transformation equation.
1 Vstretching S-coordinate stretching function.
5.0000E+00 theta_s S-coordinate surface control parameter.
4.0000E-01 theta_b S-coordinate bottom control parameter.
200.000 Tcline S-coordinate surface/bottom layer width (m) used
in vertical coordinate stretching.
1025.000 rho0 Mean density (kg/m3) for Boussinesq approximation.
0.000 dstart Time-stamp assigned to model initialization (days).
0.00 time_ref Reference time for units attribute (yyyymmdd.dd)
0.0000E+00 Tnudg(01) Nudging/relaxation time scale (days)
for tracer 01: temp
0.0000E+00 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.
0.0000E+00 M3nudg Nudging/relaxation time scale (days)
for 3D momentum.
0.0000E+00 obcfac Factor between passive and active
open boundary conditions.
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).
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(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(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(idLrad) Write out longwave radiation flux.
T Hout(idLhea) Write out latent heat flux.
T Hout(idShea) Write out sensible heat flux.
T Hout(idDano) Write out density anomaly.
T Hout(idHsbl) Write out depth of surface boundary layer.

Output/Input Files:

Output Restart File: ./output/ocean_rst.nc
Prefix for History Files: ./output/ocean_his

Tile partition information for Grid 01: 4192x0272x0030 tiling: 128x002


Tile minimum and maximum fractional grid coordinates:
(interior points only)


Maximum halo size in XI and ETA directions:

HaloSizeI(1) = 135
HaloSizeJ(1) = 444
TileSide(1) = 142
TileSize(1) = 5538


Activated C-preprocessing Options:

BENCHMARK Benchmark Test, Idealized Southern Ocean, Large Grid
ALBEDO Shortwave radiation from albedo equation.
ANA_BSFLUX Analytical kinematic bottom salinity flux.
ANA_BTFLUX Analytical kinematic bottom temperature flux.
ANA_CLOUD Analytical cloud fraction.
ANA_GRID Analytical grid set-up.
ANA_HUMIDITY Analytical surface air humidity.
ANA_INITIAL Analytical initial conditions.
ANA_PAIR Analytical surface air pressure.
ANA_RAIN Analytical rain fall rate.
ANA_SRFLUX Analytical kinematic shortwave radiation flux.
ANA_SSFLUX Analytical kinematic surface salinity flux.
ANA_WINDS Analytical surface wind components.
ASSUMED_SHAPE Using assumed-shape arrays.
BULK_FLUXES Surface bulk fluxes parametererization.
CURVGRID Orthogonal curvilinear grid.
DJ_GRADPS Parabolic Splines density Jacobian (Shchepetkin, 2002).
DOUBLE_PRECISION Double precision arithmetic.
EW_PERIODIC East-West periodic boundaries.
LMD_CONVEC LMD convective mixing due to shear instability.
LMD_MIXING Large/McWilliams/Doney interior mixing.
LMD_NONLOCAL LMD convective nonlocal transport.
LMD_RIMIX LMD diffusivity due to shear instability.
LMD_SKPP KPP surface boundary layer mixing.
LONGWAVE Compute net longwave radiation internally.
MIX_GEO_TS Mixing of tracers along geopotential surfaces.
MIX_S_UV Mixing of momentum along constant S-surfaces.
MPI MPI distributed-memory configuration.
NONLINEAR Nonlinear Model.
NONLIN_EOS Nonlinear Equation of State for seawater.
NORTHERN_WALL Wall boundary at Northern edge.
POWER_LAW Power-law shape time-averaging barotropic filter.
PROFILE Time profiling activated .
!RST_SINGLE Double precision fields in restart NetCDF file.
SALINITY Using salinity.
SOLAR_SOURCE Solar Radiation Source Term.
SOLVE3D Solving 3D Primitive Equations.
SOUTHERN_WALL Wall boundary at Southern edge.
SPLINES Conservative parabolic spline reconstruction.
SPHERICAL Spherical grid configuration.
TS_U3HADVECTION Third-order upstream horizontal advection of tracers.
TS_C4VADVECTION Fourth-order centered vertical advection of tracers.
TS_DIF2 Harmonic mixing 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_QDRAG Quadratic bottom stress.
UV_VIS2 Harmonic mixing of momentum.
VAR_RHO_2D Variable density barotropic mode.

INITIAL: Configuring and initializing forward nonlinear model ...


Vertical S-coordinate System:

level S-coord Cs-curve at_hmin over_slope at_hmax

30 0.0000000 0.0000000 0.000 0.000 0.000
29 -0.0333333 -0.0024174 -7.392 -11.622 -15.853
28 -0.0666667 -0.0052838 -14.918 -24.165 -33.412
27 -0.1000000 -0.0087922 -22.638 -38.024 -53.410
26 -0.1333333 -0.0131904 -30.624 -53.707 -76.790
25 -0.1666667 -0.0187972 -38.973 -71.868 -104.763
24 -0.2000000 -0.0260168 -47.805 -93.334 -138.864
23 -0.2333333 -0.0353508 -57.272 -119.136 -181.000
22 -0.2666667 -0.0473981 -67.553 -150.499 -233.446
21 -0.3000000 -0.0628318 -78.850 -188.805 -298.761
20 -0.3333333 -0.0823381 -91.368 -235.460 -379.551
19 -0.3666667 -0.1065031 -105.284 -291.665 -478.045
18 -0.4000000 -0.1356491 -120.695 -358.081 -595.466
17 -0.4333333 -0.1696534 -137.563 -434.456 -731.349
16 -0.4666667 -0.2078237 -155.680 -519.372 -883.063
15 -0.5000000 -0.2489214 -174.676 -610.289 -1045.901
14 -0.5333333 -0.2913811 -194.081 -703.998 -1213.915
13 -0.5666667 -0.3336756 -213.436 -797.368 -1381.301
12 -0.6000000 -0.3746809 -232.404 -888.096 -1543.788
11 -0.6333333 -0.4138998 -250.837 -975.161 -1699.486
10 -0.6666667 -0.4514899 -268.780 -1058.888 -1848.995
9 -0.7000000 -0.4881475 -286.444 -1140.702 -1994.960
8 -0.7333333 -0.5249360 -304.147 -1222.785 -2141.423
7 -0.7666667 -0.5631362 -322.274 -1307.762 -2293.251
6 -0.8000000 -0.6041494 -341.245 -1398.506 -2455.768
5 -0.8333333 -0.6494565 -361.504 -1498.053 -2634.601
4 -0.8666667 -0.7006196 -383.519 -1609.604 -2835.688
3 -0.9000000 -0.7593114 -407.793 -1736.588 -3065.383
2 -0.9333333 -0.8273620 -434.875 -1882.759 -3330.642
1 -0.9666667 -0.9068164 -465.378 -2052.307 -3639.236
0 -1.0000000 -1.0000000 -500.000 -2250.000 -4000.000

Time Splitting Weights: ndtfast = 20 nfast = 29

Primary Secondary Accumulated to Current Step

1-0.0009651193358779 0.0500000000000000-0.0009651193358779 0.0500000000000000
2-0.0013488780126037 0.0500482559667939-0.0023139973484816 0.1000482559667939
3-0.0011514592651644 0.0501156998674241-0.0034654566136460 0.1501639558342180
4-0.0003735756740661 0.0501732728306823-0.0038390322877121 0.2003372286649003
5 0.0009829200513762 0.0501919516143856-0.0028561122363360 0.2505291802792859
6 0.0029141799764308 0.0501428056118168 0.0000580677400949 0.3006719858911027
7 0.0054132615310267 0.0499970966129953 0.0054713292711216 0.3506690825040980
8 0.0084687837865133 0.0497264335364439 0.0139401130576348 0.4003955160405419
9 0.0120633394191050 0.0493029943471183 0.0260034524767398 0.4496985103876602
10 0.0161716623600090 0.0486998273761630 0.0421751148367488 0.4983983377638232
11 0.0207585511322367 0.0478912442581626 0.0629336659689856 0.5462895820219857
12 0.0257765478740990 0.0468533167015507 0.0887102138430846 0.5931428987235364
13 0.0311633730493854 0.0455644893078458 0.1198735868924700 0.6387073880313822
14 0.0368391158442262 0.0440063206553765 0.1567127027366962 0.6827137086867586
15 0.0427031802506397 0.0421643648631652 0.1994158829873359 0.7248780735499238
16 0.0486309868367617 0.0400292058506332 0.2480468698240976 0.7649072794005570
17 0.0544704302037592 0.0375976565087951 0.3025173000278568 0.8025049359093521
18 0.0600380921294286 0.0348741349986072 0.3625553921572854 0.8373790709079593
19 0.0651152103984763 0.0318722303921357 0.4276706025557617 0.8692513013000950
20 0.0694434033194839 0.0286164698722119 0.4971140058752456 0.8978677711723069
21 0.0727201499285570 0.0251442997062377 0.5698341558038026 0.9230120708785446
22 0.0745940258796570 0.0215082922098099 0.6444281816834596 0.9445203630883545
23 0.0746596950216180 0.0177785909158270 0.7190878767050776 0.9622989540041815
24 0.0724526566618460 0.0140456061647461 0.7915405333669235 0.9763445601689277
25 0.0674437485167025 0.0104229733316538 0.8589842818836260 0.9867675335005816
26 0.0590334053485719 0.0070507859058187 0.9180176872321979 0.9938183194064003
27 0.0465456732896124 0.0040991156383901 0.9645633605218102 0.9979174350447905
28 0.0292219798521903 0.0017718319739095 0.9937853403740006 0.9996892670187000
29 0.0062146596259995 0.0003107329813000 1.0000000000000000 1.0000000000000000

ndtfast, nfast = 20 29 nfast/ndtfast = 1.45000

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

1.000000000000 1.060707743385 0.530353871693 1.000000000000 1.000000000000

Power filter parameters, Fgamma, gamma = 0.28400 0.14200

Minimum X-grid spacing, DXmin = 3.26041548E+00 km
Maximum X-grid spacing, DXmax = 6.14309257E+00 km
Minimum Y-grid spacing, DYmin = 8.17650180E+00 km
Maximum Y-grid spacing, DYmax = 8.17650180E+00 km
Minimum Z-grid spacing, DZmin = 7.39187981E+00 m
Maximum Z-grid spacing, DZmax = 3.60764219E+02 m

Minimum barotropic Courant Number = 1.62217863E-01
Maximum barotropic Courant Number = 4.49102838E-01
Maximum Coriolis Courant Number = 2.05618380E-02


Maximum grid stiffness ratios: rx0 = 3.966042E-01 (Beckmann and Haidvogel)
rx1 = 1.150589E+01 (Haney)


Initial basin volumes: TotVolume = 1.65993987026480E+17 m3
MinVolume = 1.97754634567622E+08 m3
MaxVolume = 1.80931355725002E+10 m3
Max/Min = 9.14928523018421E+01

NL ROMS/TOMS: started time-stepping: (Grid: 01 TimeSteps: 00000001 - 00017532)

STEP Day HH:MM:SS KINETIC_ENRG POTEN_ENRG TOTAL_ENRG NET_VOLUME

0 0 00:00:00 0.000000E+00 1.963001E+04 1.963001E+04 1.659940E+17
DEF_HIS - creating history file: ./output/ocean_his_0001.nc

NETCDF_CREATE - unable to create output NetCDF file:
./output/ocean_his_0001.nc
call from: def_his.F

DEF_HIS - unable to create history NetCDF file: ./output/ocean_his_0001.nc

Elapsed CPU time (seconds):

Node # 0 CPU: 0.807
Node # 1 CPU: 0.822
Node # 2 CPU: 0.821
Node # 4 CPU: 0.827
Node # 6 CPU: 0.837
Node # 10 CPU: 0.826
Node # 5 CPU: 0.831
Node # 9 CPU: 0.828
Node # 14 CPU: 0.832
Node # 12 CPU: 0.842
Node # 11 CPU: 0.826
Node # 13 CPU: 0.838
Node # 29 CPU: 0.836
Node # 26 CPU: 0.829
Node # 54 CPU: 0.864
Node #109 CPU: 0.810
Node #219 CPU: 0.830
Node # 3 CPU: 0.831
Node # 7 CPU: 0.851
Node # 16 CPU: 0.287
Node # 33 CPU: 0.850
Node # 21 CPU: 0.302
Node # 20 CPU: 0.297
Node # 19 CPU: 0.291
Node # 41 CPU: 0.833
Node # 83 CPU: 0.833
Node # 42 CPU: 0.834
Node # 85 CPU: 0.840
Node #168 CPU: 0.810
Node #167 CPU: 0.844
Node # 39 CPU: 0.864
Node # 22 CPU: 0.296
Node # 43 CPU: 0.826
Node # 44 CPU: 0.831
Node # 90 CPU: 0.824
Node # 46 CPU: 0.842
Node # 94 CPU: 0.839
Node # 87 CPU: 0.838
Node # 45 CPU: 0.834
Node # 92 CPU: 0.831
Node # 88 CPU: 0.835
Node #177 CPU: 0.841
Node # 89 CPU: 0.827
Node #179 CPU: 0.843
Node #175 CPU: 0.827
Node #176 CPU: 0.839
Node #181 CPU: 0.846
Node #189 CPU: 0.839
Node #185 CPU: 0.825
Node #186 CPU: 0.830
Node #178 CPU: 0.842
Node #180 CPU: 0.843
Node #182 CPU: 0.848
Node #190 CPU: 0.830
Node #183 CPU: 0.850
Node # 67 CPU: 0.856
Node # 68 CPU: 0.853
Node #138 CPU: 0.835
Node #135 CPU: 0.863
Node #136 CPU: 0.837
Node #137 CPU: 0.844
Node # 15 CPU: 0.851
Node # 91 CPU: 0.824
Node #184 CPU: 0.836
Node # 93 CPU: 0.834
Node #187 CPU: 0.834
Node #188 CPU: 0.834
Node # 81 CPU: 0.843
Node # 31 CPU: 0.843
Node # 63 CPU: 0.838
Node #128 CPU: 0.840
Node # 32 CPU: 0.856
Node # 65 CPU: 0.843
Node # 66 CPU: 0.852
Node #133 CPU: 0.838
Node #127 CPU: 0.851
Node #132 CPU: 0.841
Node #131 CPU: 0.836
Node #134 CPU: 0.855
Node #255 CPU: 0.847
Node #129 CPU: 0.846
Node # 64 CPU: 0.846
Node #130 CPU: 0.840
Node # 34 CPU: 0.848
Node # 18 CPU: 0.289
Node # 38 CPU: 0.848
Node # 40 CPU: 0.833
Node # 82 CPU: 0.825
Node #165 CPU: 0.845
Node #166 CPU: 0.829
Node # 79 CPU: 0.839
Node #159 CPU: 0.846
Node #160 CPU: 0.830
Node #162 CPU: 0.835
Node #161 CPU: 0.847
Node # 80 CPU: 0.838
Node # 69 CPU: 0.856
Node #139 CPU: 0.848
Node #140 CPU: 0.833
Node # 70 CPU: 0.855
Node #141 CPU: 0.847
Node #142 CPU: 0.845
Node #164 CPU: 0.838
Node #163 CPU: 0.840
Node # 8 CPU: 0.832
Node # 77 CPU: 0.833
Node #155 CPU: 0.834
Node # 78 CPU: 0.829
Node #157 CPU: 0.831
Node #158 CPU: 0.829
Node #156 CPU: 0.833
Node # 37 CPU: 0.856
Node # 76 CPU: 0.823
Node #153 CPU: 0.832
Node #154 CPU: 0.829
Node # 75 CPU: 0.831
Node #151 CPU: 0.865
Node #152 CPU: 0.830
Node # 17 CPU: 0.292
Node # 84 CPU: 0.846
Node #170 CPU: 0.810
Node #169 CPU: 0.802
Node # 30 CPU: 0.846
Node # 62 CPU: 0.830
Node # 59 CPU: 0.825
Node # 35 CPU: 0.863
Node # 71 CPU: 0.866
Node #143 CPU: 0.852
Node # 72 CPU: 0.821
Node #146 CPU: 0.845
Node #144 CPU: 0.838
Node #145 CPU: 0.840
Node # 36 CPU: 0.856
Node # 73 CPU: 0.837
Node #148 CPU: 0.853
Node #147 CPU: 0.856
Node # 74 CPU: 0.842
Node #149 CPU: 0.857
Node #150 CPU: 0.857
Node # 86 CPU: 0.839
Node #173 CPU: 0.822
Node #174 CPU: 0.815
Node #171 CPU: 0.806
Node #172 CPU: 0.816
Node # 27 CPU: 0.832
Node # 60 CPU: 0.822
Node #126 CPU: 0.854
Node #122 CPU: 0.857
Node #245 CPU: 0.810
Node # 61 CPU: 0.825
Node #124 CPU: 0.854
Node #250 CPU: 0.831
Node #249 CPU: 0.853
Node #254 CPU: 0.842
Node #125 CPU: 0.858
Node #251 CPU: 0.843
Node #252 CPU: 0.842
Node #247 CPU: 0.819
Node #253 CPU: 0.844
Node #248 CPU: 0.847
Node #123 CPU: 0.857
Node #246 CPU: 0.822
Node #244 CPU: 0.815
Node #121 CPU: 0.870
Node #243 CPU: 0.815
Node #241 CPU: 0.822
Node #120 CPU: 0.865
Node #242 CPU: 0.810
Node #119 CPU: 0.824
Node #239 CPU: 0.835
Node #240 CPU: 0.823
Node # 56 CPU: 0.834
Node #114 CPU: 0.827
Node # 55 CPU: 0.862
Node #230 CPU: 0.818
Node #111 CPU: 0.829
Node #223 CPU: 0.829
Node #112 CPU: 0.821
Node #226 CPU: 0.815
Node #229 CPU: 0.811
Node #224 CPU: 0.813
Node #227 CPU: 0.811
Node #113 CPU: 0.826
Node #228 CPU: 0.821
Node #225 CPU: 0.823
Node #115 CPU: 0.823
Node #231 CPU: 0.820
Node #232 CPU: 0.810
Node # 57 CPU: 0.824
Node #116 CPU: 0.825
Node #233 CPU: 0.818
Node #234 CPU: 0.809
Node # 28 CPU: 0.830
Node # 58 CPU: 0.835
Node #118 CPU: 0.826
Node #237 CPU: 0.821
Node #117 CPU: 0.830
Node #235 CPU: 0.807
Node #236 CPU: 0.816
Node #238 CPU: 0.817
Node #220 CPU: 0.824
Node # 50 CPU: 0.860
Node #102 CPU: 0.823
Node #205 CPU: 0.841
Node #206 CPU: 0.832
Node #101 CPU: 0.838
Node # 24 CPU: 0.834
Node # 23 CPU: 0.312
Node # 48 CPU: 0.863
Node # 98 CPU: 0.832
Node # 97 CPU: 0.831
Node #197 CPU: 0.848
Node #198 CPU: 0.846
Node #196 CPU: 0.838
Node #195 CPU: 0.832
Node #203 CPU: 0.821
Node #204 CPU: 0.837
Node #110 CPU: 0.816
Node #221 CPU: 0.830
Node #222 CPU: 0.828
Node # 51 CPU: 0.868
Node #209 CPU: 0.829
Node #104 CPU: 0.807
Node #210 CPU: 0.822
Node # 25 CPU: 0.833
Node # 52 CPU: 0.864
Node # 53 CPU: 0.859
Node #103 CPU: 0.843
Node #207 CPU: 0.837
Node #208 CPU: 0.822
Node #211 CPU: 0.832
Node #212 CPU: 0.847
Node #105 CPU: 0.812
Node #107 CPU: 0.815
Node #215 CPU: 0.838
Node #216 CPU: 0.820
Node #108 CPU: 0.822
Node #217 CPU: 0.818
Node #218 CPU: 0.814
Node #106 CPU: 0.808
Node #213 CPU: 0.828
Node #214 CPU: 0.846
Node # 47 CPU: 0.852
Node # 95 CPU: 0.839
Node #191 CPU: 0.839
Node #192 CPU: 0.825
Node # 96 CPU: 0.825
Node #193 CPU: 0.842
Node #194 CPU: 0.842
Node #199 CPU: 0.857
Node # 99 CPU: 0.833
Node #200 CPU: 0.815
Node # 49 CPU: 0.853
Node #100 CPU: 0.827
Node #202 CPU: 0.816
Node #201 CPU: 0.824
Total: 209.417

Nonlinear model elapsed time profile:

Initialization ................................... 30.335 (14.4856 %)
Processing of input data ......................... 0.251 ( 0.1198 %)
Computation of vertical boundary conditions ...... 0.094 ( 0.0449 %)
Computation of global information integrals ...... 1.934 ( 0.9234 %)
2D/3D coupling, vertical metrics ................. 1.778 ( 0.8489 %)
Omega vertical velocity .......................... 1.780 ( 0.8498 %)
Equation of state for seawater ................... 7.044 ( 3.3636 %)
Atmosphere-Ocean bulk flux parameterization ...... 1.508 ( 0.7200 %)
KPP vertical mixing parameterization ............. 7.200 ( 3.4381 %)
Total: 51.923 24.7941

Nonlinear model message Passage profile:

Message Passage: 2D halo exchanges ............... 12.505 ( 5.9714 %)
Message Passage: 3D halo exchanges ............... 7.329 ( 3.4997 %)
Message Passage: 4D halo exchanges ............... 1.380 ( 0.6589 %)
Message Passage: data broadcast .................. 136.902 (65.3730 %)
Message Passage: data reduction .................. 8.470 ( 4.0444 %)
Total: 166.586 79.5473

All percentages are with respect to total time = 209.417

ROMS/TOMS - Output NetCDF summary for Grid 01:

Analytical header files used:

ROMS/Functionals/ana_btflux.h
ROMS/Functionals/ana_cloud.h
ROMS/Functionals/ana_grid.h
ROMS/Functionals/ana_humid.h
ROMS/Functionals/ana_initial.h
ROMS/Functionals/ana_pair.h
ROMS/Functionals/ana_rain.h
ROMS/Functionals/ana_srflux.h
ROMS/Functionals/ana_stflux.h
ROMS/Functionals/ana_tair.h
ROMS/Functionals/ana_winds.h

ROMS/TOMS - Output error ............ exit_flag: 3


ERROR: Abnormal termination: NetCDF OUTPUT.
REASON: No such file or directory
Starting /var/spool/PBS/mom_priv/epilogue, please be patient
----------------
en[001-004,006-008,010-018,054,057,063,065,072,081,083-084,086,093,095,099,101-102,105-106]
----------------


Epilogue finished, job ends:


Please help

Thanks and Regards
Prakrati Agrawal

jcwarner
Posts: 969
Joined: Wed Dec 31, 2003 6:16 pm
Location: USGS, USA

Re: ROMS Error: Abnormal Termination NETCDF OUTPUT

#2 Post by jcwarner »

quick guess, but do you have a directory called
output
?

prakrati
Posts: 24
Joined: Thu Oct 21, 2010 9:35 pm
Location: CRL

Re: ROMS Error: Abnormal Termination NETCDF OUTPUT

#3 Post by prakrati »

Yes I do have a directory called output

User avatar
kate
Posts: 3940
Joined: Wed Jul 02, 2003 5:29 pm
Location: CFOS/UAF, USA

Re: ROMS Error: Abnormal Termination NETCDF OUTPUT

#4 Post by kate »

The error you have received is from this block of code in def_his.F:

Code: Select all

        CALL netcdf_create (ng, iNLM, TRIM(ncname), ncHISid(ng))
        IF (exit_flag.ne.NoError) THEN 
          IF (Master) WRITE (stdout,30) TRIM(ncname)
          RETURN
        END IF
The call to the netcdf library that failed is from mod_netcdf.F in here:

Code: Select all

      IF (InpThread) THEN 
        SELECT CASE (omode)
          CASE (0)
            status=nf90_open(TRIM(ncname), nf90_nowrite, ncid)
          CASE (1)
            status=nf90_open(TRIM(ncname), nf90_write, ncid)
          CASE DEFAULT
            status=nf90_open(TRIM(ncname), nf90_nowrite, ncid)
        END SELECT
        IF (status.ne.nf90_noerr) THEN 
          WRITE (stdout,10) TRIM(ncname), TRIM(SourceFile)
          exit_flag=3
          ioerror=status
        END IF
      END IF
What you know is that the returned status has an error code, but you don't know which. What I would do is add this line into this IF block:

Code: Select all

PRINT *, trim(nf90_strerror(status))
This should tell you something about the manner of the failure, be it permissions or quotas or something else.

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