[RegCNET] error in running chemistry module

SUDIPTA GHOSH sudiptaghosh006 at gmail.com
Tue Sep 20 08:37:34 CEST 2016


Hello everyone,

I am very new to climate modelling, so seeking an apology on the first hand
if my question is very trivial but seriously I am not able to sort this
error.

*I'm trying to run the RegCM 4.4.5.11 using the chemistry SUCA and CARB.  I
did all the pre-processing, but when I go to run the model this is the
error which I am getting in the log file:*

  This is RegCM trunk
   SVN Revision: tag 4.4.5.10 compiled at: data : Sep 16 2016  time:
14:07:26

 : this run start at  : 2016-09-19 12:11:50+0530
 : it is submitted by :
 : it is running on   : cn086
 : it is using        :           288   processors
 : in directory       : /home/cas/phd/asz148358/RCM445_PGI

 CPUS DIM1 =            16
 CPUS DIM2 =            18

 Reading model namelist file
 SUCA simulation
 Initial date of the global simulation: 2004-01-01 00:00:00 UTC
 Initial date of this run             : 2004-01-01 00:00:00 UTC
 Final date of this run               : 2004-01-03 00:00:00 UTC
 Total simulation lenght              :            48  hours
 Timestep in seconds =   30.000000
 Split explicit dtau =    7.500000  15.000000
 Reading Domain file :
 /scratch/cas/phd/asz148358/REGCM/input/test_clm45/test_clm_DOMAIN000.nc
  Setting IPCC scenario to A1B
 Create SAV files :   T
 Create ATM files :   T
 Create RAD files :   T
 Create SRF files :   T
 Create STS files :   T
 Create CHE files :   T
 Create OPT files :   T
 Frequency in hours to create SAV : 7200.0
 Frequency in hours to create ATM :    6.0
 Frequency in hours to create RAD :    6.0
 Frequency in hours to create SRF :    3.0
 Frequency in hours to create CHE :    6.0
 Frequency in hours to create OPT :    6.0
 Physical Parameterizations
  Lateral Boundary conditions :  5
  Semi-Lagrangian Advection   :  0
  Land cumulus conv. scheme   :  4
  Ocean cumulus conv. scheme  :  4
  Moisture schem              :  1
  Ocean Flux scheme           :  2
  Zeng roughness formula      :  2
  Coupling with ROMS ocean    :  0
  Pressure gradient force     :  0
  Prescribed LW emissivity    :  0
  Lake model in BATS          :  0
  Simulate diurnal sst cycle  :  0
  Simulate sea ice cover      :  0
  Simulate desert seasons     :  0
  Enable chem/aerosol model   :  1
  Convective LWP scheme       :  1
 Boundary Pameterizations
  Nudge value high range     :  3.000000
  Nudge value medium range   :  2.000000
  Nudge value low range      :  1.000000
   Model Timestep Pameterizations
  time step for dynamical model in seconds :    30.000000
  time step for surface   model in seconds :   600.000000
  time step for radiation model in minutes :    30.000000
  time step for emission  model in hours   :    18.000000
  time step for chemistry model in seconds :   900.000000
 Domain grid parameters:
  Map Projection        : ROTMER
  Dot Grid Full Extent  :  420x 300x 18
  Model Top Pressure    :    5.000000 cb
  Model Grid Spacing    :   25.000000 km
  Grid Center Latitude  :   16.000000 deg
  Grid Center longitude :   70.000000 deg
  Pole Latitude         :   16.000000 deg
  Pole longitude        :   70.000000 deg
 PBL limit for Holtstag
  Index of highest allowed pbl :  10
 SUBEX large scale precipitation parameters
 # of bottom no cloud model levels :  1
  Auto-conversion rate:         Land =    0.000250 Ocean =    0.000250
  Relative humidity thresholds: Land =    0.800000 Ocean =    0.900000
  Gultepe factors:              Land =    0.400000 Ocean =    0.400000
  Maximum relative humidity         :    1.010000
  RH0 temperature threshold         :  238.000000
  Land Raindrop Evaporation Rate    :    0.001000
  Ocean Raindrop Evaporation Rate   :    0.001000
  Land Raindrop Accretion Rate      :    3.000000
  Ocean Raindrop Accretion Rate     :    3.000000
  Maximum total cloud cover for rad :    0.750000
  Condensation threshold            :    1.000000
 Emanuel (1991) Convection Scheme V4.3C used.
  Min Convection origin             :    0.950000
  Autoconversion Threshold (ocean)  :    0.001100
  Autoconversion Threshold (land)   :    0.001100
  Autoconversion Threshold to zero  :  -55.000000
  Entrainment Coefficient           :    1.500000
  Fractional area of uns. downdraft :    0.050000
  Fractional area of uns. downdraft :    0.050000
  Fall speed of rain                :   50.000000
  Fall speed of snow                :    5.500000
  Rain evaporation coefficient      :    1.000000
  Snow evaporation coefficient      :    0.800000
  Convective momentum transport coef:    0.700000
  Downdraft velocity scale          :   10.000000
  Max negative perturbation blw LFC :    0.900000
  Quasi-equilibrium approach rate 1 :    0.200000
  Quasi-equilibrium approach rate 2 :    0.100000
  Precipitation efficienct (land)   :    0.999000
  Precipitation efficienct (ocean)  :    0.999000
 Convective Cloud Cover parameters after resolution scaling
  Maximum Convective Cloud Cover :    0.770833
  Convective Cloud Water         :    0.000300
 The surface energy budget is used to calculate the ground temperature.
 The radiation is computed every   60 time steps.
 Relaxation boundary conditions (exponential method)
# k       sigma           a      dsigma       twt(1)       twt(2)
qcon
  1      0.0000      0.0250      0.0500       0.0000       0.0000
0.0000
  2      0.0500      0.0750      0.0500       0.5000       0.5000
0.5000
  3      0.1000      0.1300      0.0600       0.4545       0.5455
0.5455
  4      0.1600      0.1950      0.0700       0.4615       0.5385
0.5385
  5      0.2300      0.2700      0.0800       0.4667       0.5333
0.5333
  6      0.3100      0.3500      0.0800       0.5000       0.5000
0.5000
  7      0.3900      0.4300      0.0800       0.5000       0.5000
0.5000
  8      0.4700      0.5100      0.0800       0.5000       0.5000
0.5000
  9      0.5500      0.5900      0.0800       0.5000       0.5000
0.5000
 10      0.6300      0.6700      0.0800       0.5000       0.5000
0.5000
 11      0.7100      0.7450      0.0700       0.5333       0.4667
0.4667
 12      0.7800      0.8100      0.0600       0.5385       0.4615
0.4615
 13      0.8400      0.8650      0.0500       0.5455       0.4545
0.4545
 14      0.8900      0.9100      0.0400       0.5556       0.4444
0.4444
 15      0.9300      0.9450      0.0300       0.5714       0.4286
0.4286
 16      0.9600      0.9700      0.0200       0.6000       0.4000
0.4000
 17      0.9800      0.9850      0.0100       0.6667       0.3333
0.3333
 18      0.9900      0.9950      0.0100       0.5000       0.5000
0.5000
 19      1.0000
  Constant hor. diff. coef. =  0.312500E+05 m^2 s-1
  Maximumt hor. diff. coef. =  0.325521E+06 m^2 s-1
 READY IC DATA for 2004-01-01 00:00:00 UTC
 SEARCH BC data for    2004010106
 READY  BC from        2004010100  to    2004010106
  # Ozone profile at (3,3) #
    0.502E-05  0.219E-05  0.124E-05  0.737E-06  0.407E-06  0.229E-06
0.159E-06
    0.120E-06  0.957E-07  0.801E-07  0.696E-07  0.630E-07  0.589E-07
0.563E-07
    0.563E-07  0.546E-07  0.533E-07  0.525E-07  0.523E-07  0.520E-07
 tracer cbmz index molw
 BC_HL            -1    0.000000000000000
 BC_HB            -1    0.000000000000000
 OC_HL            -1    0.000000000000000
 OC_HB            -1    0.000000000000000
 SO2              11    64.00000000000000
 SO4              -1    0.000000000000000
 tracer index coreesponding to bdy species
  # ichbdy2trac #
         2       1       4       3       5       6       0
         0       0       0       0       0       0       0
         0       0       0       0       0       0       0
         0       0       0       0       0       0       0
         0       0       0       0       0       0       0
         0       0       0       0       0       0       0
         0       0       0       0       0       0       0
         0       0
 READ CHEM EMISSION for    2004010001
 Opening ch. emission file
 /scratch/cas/phd/asz148358/REGCM/input/test_clm45/test_clm_CHEMISS.nc
-------------------------------------------------------
Primary job  terminated normally, but 1 process returned
a non-zero exit code.. Per user-direction, the job has been aborted.
-------------------------------------------------------
--------------------------------------------------------------------------
mpirun detected that one or more processes exited with non-zero status,
thus causing
the job to be terminated. The first process to do so was:

  Process name: [[24040,1],0]
  Exit code:    127

*And the error file gave the following message:*

PGFIO-F-231/formatted read/internal file/error on data conversion.
 In source file mod_date.F90, at line number 1384
*It will be helpful if anybody can help me to sort this issue.*

-- 
Regards

Sudipta Ghosh
PhD Scholar, Center for Atmospheric Sciences
Indian Institute of Technology Delhi,India.
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