Changes between Version 14 and Version 15 of user/lovato/cfgrst


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Timestamp:
2018-12-04T15:55:55+01:00 (22 months ago)
Author:
lovato
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  • user/lovato/cfgrst

    v14 v15  
    3131====================== ===== ===== ===== ======== ======= ================================================ 
    3232 
    33 **How to create an experiment from a reference configuration** 
    34  
    35 makenemo bla bla bla 
    36  
    37  
     33**How to compile an experiment from a reference configuration** 
     34 
     35A user who wants to compile the ORCA2_ICE_PISCES_ reference configuration using makenemo should use the following, by selecting among available architecture file or providing a user defined one: 
     36 
     37 
     38.. code-block:: console 
     39                 
     40        $ ./makenemo -r 'ORCA2_ICE_PISCES' -m 'my-fortran.fcm' -j '4' 
     41 
     42A new EXP00 folder will be created within the selected reference configurations, namely ``trunk/cfgs/ORCA2_ICE_PISCES/EXP00``, where it will be necessary to uncompress the Input & Forcing Files listed in the above table. 
     43 
     44Then it will be possible to launch the execution of the model through a runscript (opportunely adapted to the user system). 
    3845 
    3946AGRIF_DEMO 
     
    128135---------------- 
    129136 
    130 ORCA is the generic name given to global ocean configurations. 
    131 Its specificity lies on the horizontal curvilinear mesh used to overcome the North Pole singularity found for 
    132 geographical meshes. 
    133 SI3 (Sea Ice Integrated Initiative) is a thermodynamic-dynamic sea ice model specifically designed for 
    134 climate studies. 
    135 A brief description of the model is given here. 
    136  
    137 :underline:`Space-time domain` 
    138  
    139 The horizontal resolution available through the standard configuration is ORCA2. 
    140 It is based on a 2 degrees Mercator mesh, (i.e. variation of meridian scale factor as cosinus of the latitude). 
    141 In the northern hemisphere the mesh has two poles so that the ratio of anisotropy is nearly one everywhere. 
    142 The mean grid spacing is about 2/3 of the nominal value: for example it is 1.3 degrees for ORCA2. 
    143 Other resolutions (ORCA4, ORCA05 and ORCA025) are running or under development within specific projects. 
    144 In the coarse resolution version (i.e. ORCA2 and ORCA4) the meridional grid spacing is increased near 
    145 the equator to improve the equatorial dynamics. 
    146 Figures in pdf format of mesh and bathymetry can be found and downloaded here. 
    147 The sea-ice model runs on the same grid. 
    148  
    149 The vertical domain spreads from the surface to a depth of 5000m. 
    150 There are 31 levels, with 10 levels in the top 100m. 
    151 The vertical mesh is deduced from a mathematical function of z ([[AttachmentNum(1)]]). 
    152 The ocean surface corresponds to the w-level k=1, and the ocean bottom to the w-level k=31. 
    153 The last T-level (k=31) is thus always in the ground.The depths of the vertical levels and 
    154 the associated scale factors can be viewed. 
    155 Higher vertical resolution is used in ORCA025 and ORCA12 (see `DRAKKAR project <http://www.drakkar-ocean.eu>`_). 
    156  
    157 The time step depends on the resolution. It is 1h36' for ORCA2 so that there is 15 time steps in one day. 
    158  
    159 :underline:`Ocean Physics (for ORCA2)` 
    160  
    161 - horizontal diffusion on momentum: the eddy viscosity coefficient depends on the geographical position. 
    162   It is taken as 40000 $m^2/s$, reduced in the equator regions (2000 $m^2/s$) excepted near the western boundaries. 
    163 - isopycnal diffusion on tracers: the diffusion acts along the isopycnal surfaces (neutral surface) with 
    164   a eddy diffusivity coefficient of 2000 $m^2/s$. 
    165 - Eddy induced velocity parametrization with a coefficient that depends on the growth rate of 
    166   baroclinic instabilities (it usually varies from 15 $m^2/s$ to 3000 $m^2/s$). 
    167 - lateral boundary conditions : zero fluxes of heat and salt and no-slip conditions are applied through 
    168   lateral solid boundaries. 
    169 - bottom boundary condition : zero fluxes of heat and salt are applied through the ocean bottom. 
     137ORCA2_ICE_PISCES is a reference configuration for the global ocean with a 2°x2° curvilinear horizontal mesh and 31 vertical levels, distributed using z-coordinate system and with 10 levels in the top 100m. 
     138ORCA is the generic name given to global ocean Mercator mesh, (i.e. variation of meridian scale factor as cosinus of the latitude), with two poles in the northern hemisphere so that the ratio of anisotropy is nearly one everywhere 
     139 
     140In this configuration, the ocean dynamical core  is coupled to   
     141 
     142- **ICE**, namely SI3 (Sea Ice Integrated Initiative) a thermodynamic-dynamic sea ice model specifically designed for climate studies. 
     143- **TOP**, passive tracer transport module and `PISCES biogeochemical model`_ 
     144 
     145All components share the same grid. 
     146 
     147The model is forced with CORE-II normal year atmospheric forcing and it uses the NCAR bulk formulae. 
     148 
     149**Ocean Physics configuration** 
     150 
     151- *horizontal diffusion on momentum*: the eddy viscosity coefficient depends on the geographical position. It is taken as 40000 m^2/s, reduced in the equator regions (2000 m^2/s) excepted near the western boundaries. 
     152- *isopycnal diffusion on tracers*: the diffusion acts along the isopycnal surfaces (neutral surface) with an eddy diffusivity coefficient of 2000 m^2/s. 
     153- *Eddy induced velocity parametrization* with a coefficient that depends on the growth rate of baroclinic instabilities (it usually varies from 15 m^2/s to 3000 m^2/s). 
     154- *lateral boundary conditions* : zero fluxes of heat and salt and no-slip conditions are applied through lateral solid boundaries. 
     155- *bottom boundary condition* : zero fluxes of heat and salt are applied through the ocean bottom. 
    170156  The Beckmann [19XX] simple bottom boundary layer parameterization is applied along continental slopes. 
    171157  A linear friction is applied on momentum. 
    172 - convection: the vertical eddy viscosity and diffusivity coefficients are increased to 1 $m^2/s$ in case of 
    173   static instability. 
    174 - forcings: the ocean receives heat, freshwater, and momentum fluxes from the atmosphere and/or the sea-ice. 
    175   The solar radiation penetrates the top meters of the ocean. 
    176   The downward irradiance I(z) is formulated with two extinction coefficients [Paulson and Simpson, 1977], 
    177   whose values correspond to a Type I water in Jerlov's classification (i.e the most transparent water) 
    178  
    179 ORCA2_ICE_PISCES is a reference configuration with the following characteristics: 
    180  
    181 - global ocean configuration 
    182 - based on a tri-polar ORCA grid, with a 2° horizontal resolution 
    183 - 31 vertical levels 
    184 - forced with climatological surface fields 
    185 - coupled to the sea-ice model SI3. 
    186 - coupled to TOP passive tracer transport module and `PISCES biogeochemical model`_. 
    187  
    188 :underline:`AGRIF demonstrator` 
    189  
    190 | From the ``ORCA2_ICE_PISCES`` configuration, a demonstrator using AGRIF nesting can be activated. 
    191   It includes the global ``ORCA2_ICE_PISCES`` configuration and a nested grid in the Agulhas region. 
    192 | To set up this configuration, after extracting NEMO: 
    193  
    194 - Build your AGRIF configuration directory from ORCA2_ICE_PISCES, with the key_agrif CPP key activated: 
     158- *convection*: the vertical eddy viscosity and diffusivity coefficients are increased to 1 m^2/s in case of static instability. 
     159- *time step* is 5760sec (1h36') so that there is 15 time steps in one day. 
     160 
     161 
     162 
     163**AGRIF demonstrator** 
     164 
     165From the ORCA2_ICE_PISCES configuration, a demonstrator using AGRIF nesting can be activated that includes a nested grid in the Agulhas region. 
     166 
     167To set up this configuration, after extracting NEMO: 
     168 
     169Build your AGRIF configuration directory from ORCA2_ICE_PISCES, with the key_agrif CPP key activated: 
    195170 
    196171.. code-block:: console 
     
    198173        $ ./makenemo -r 'ORCA2_ICE_PISCES' -n 'AGRIF' add_key 'key_agrif' 
    199174 
    200 - Using the ``ORCA2_ICE_PISCES`` input files and namelist, AGRIF test configuration is ready to run 
    201  
    202 :underline:`On-The-Fly Interpolation` 
    203  
    204 | NEMO allows to use the interpolation on the fly option allowing to interpolate input data during the run. 
    205   If you want to use this option you need files giving informations on weights, which have been created. 
    206 | You can find at http://prodn.idris.fr/thredds/catalog/ipsl_public/reee512/ORCA2_ONTHEFLY/WEIGHTS/catalog.html 
    207   2 weights files `bil_weights` for scalar field (bilinear interpolation) and `bic_weights` for 
    208   vector field (bicubic interpolation). 
    209 | The data files used are `COREII forcing <http://data1.gdfl.noaa.gov/nomads/forms/mom4/COREv2>`_ extrapolated on 
    210   continents, ready to be used for on the fly option: 
    211   `COREII`_ forcing files extrapolated on continents 
     175By using the input files and namelists for ORCA2_ICE_PISCES, the AGRIF test configuration is ready to run. 
     176 
    212177 
    213178ORCA2_OFF_PISCES