3.17.3 Code configuration

The model configuration for this experiment resides in verification/dic_example. The modifications to the code (in verification/dic_example/code) are:

• SIZE.h: which dictates the size of the model domain (128x64x15).
• PTRACERS_SIZE.h: which dictates how many tracers to assign how many tracers will be used (5).
• GCHEM_OPTIONS.h: provides some compiler time options for the /pkg/gchem. In particular this example requires that DIC_BIOTIC and GCHEM_SEPARATE_FORCING be defined.
• GMREDI_OPTIONS.h: assigns the Gent-McWilliam eddy parameterization options.
• DIAGNOSTICS_SIZE.h: assigns size information for the diagnostics package.
• packages.conf: which dictates which packages will be compiled in this version of the model - among the many that are used for the physical part of the model, this also includes ptracers, gchem, and dic which allow the biogeochemical part of this setup to function.

The input fields needed for this run (in verification/dic_example/input) are:

• data: specifies the main parameters for the experiment, some parameters that may be useful to know: nTimeSteps number timesteps model will run, change to 720 to run for a year taveFreq frequency with which time averages are done, change to 31104000 for annual averages.
• data.diagnostics: species details of diagnostic pkg output
• data.gchem: specifics files and other details needed in the biogeochemistry model run
• data.gmredi: species details for the GM parameterization
• data.mnc: specifies details for types of output, netcdf or binary
• data.pkg: set true or false for various packages to be used
• data.ptracers: details of the tracers to be used, including makes, diffusivity information and (if needed) initial files. Of particular importance is the PTRACERS_numInUse which states how many tracers are used, and PTRACERS_Iter0 which states at which timestep the biogeochemistry model tracers were initialized.
• depth_g77.bin: bathymetry data file
• eedata: This file uses standard default values and does not contain customizations for this experiment.
• fice.bin: ice data file, needed for the biogeochemistry
• lev_monthly_salt.bin: SSS values which model relaxes toward
• lev_monthly_temp.bin: SST values which model relaxes toward
• pickup.0004248000.data: variable and tendency values need to restart the physical part of the model
• pickup_cd.0004248000.data: variable and tendency values need to restart the cd pkg
• pickup_ptracers.0004248000.data: variable and tendency values need to restart the the biogeochemistry part of the model
• POLY3.COEFFS: coefficient for the non-linear equation of state
• shi_empmr_year.bin: freshwater forcing data file
• shi_qnet.bin: heat flux forcing data file
• sillev1.bin: silica data file, need for the biogeochemistry
• tren_speed.bin: wind speed data file, needed for the biogeochemistry
• tren_taux.bin: meridional wind stress data file
• tren_tauy.bin: zonal wind stress data file

Copyright © 2006 Massachusetts Institute of Technology

Last update 2018-01-23