Changeset 2541 for trunk/DOC/TexFiles/Chapters/Introduction.tex
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trunk/DOC/TexFiles/Chapters/Introduction.tex
r2376 r2541 41 41 the tendency terms of the equations are evaluated either centered in time, or forward, 42 42 or backward depending of the nature of the term. 43 Chapter~\ref{DOM} presents the space domain. The model is discretised on a staggered grid44 (Arakawa C grid) with masking of land areas and uses a Leap-frog environment for time-stepping.45 Vertical discretisation used depends on both how the bottom topography is represented and46 whether the free surface is linear or not. Full step or partial step $z$-coordinate or47 $s$- (terrain-following) coordinate is used with linear free surface (level position are then48 fixed in time). In non-linear free surface, the corresponding rescaled height coordinate49 formulation (\textit{z*} or \textit{s*}) is used (the level position then vary in time as a50 function of the sea surface heigh). The following two chapters (\ref{TRA} and \ref{DYN})51 describe the discretisation of the prognostic equations for the active tracers and the52 momentum. Explicit, split-explicitand filtered free surface formulations are implemented.43 Chapter~\ref{DOM} presents the space domain. The model is discretised on a staggered 44 grid (Arakawa C grid) with masking of land areas. Vertical discretisation used depends 45 on both how the bottom topography is represented and whether the free surface is linear or not. 46 Full step or partial step $z$-coordinate or $s$- (terrain-following) coordinate is used 47 with linear free surface (level position are then fixed in time). In non-linear free surface, 48 the corresponding rescaled height coordinate formulation (\textit{z*} or \textit{s*}) is used 49 (the level position then vary in time as a function of the sea surface heigh). 50 The following two chapters (\ref{TRA} and \ref{DYN}) describe the discretisation of the 51 prognostic equations for the active tracers and the momentum. Explicit, split-explicit 52 and filtered free surface formulations are implemented. 53 53 A number of numerical schemes are available for momentum advection, for the computation 54 54 of the pressure gradients, as well as for the advection of tracers (second or higher … … 79 79 or \citet{Umlauf_Burchard_JMS03} mixing schemes. 80 80 81 Chapter~\ref{OBS} describes a tool which reads in observation files (profile temperature and salinity, 82 sea surface temperature, sea level anomaly and sea ice concentration) and calculates an interpolated 83 model equivalent value at the observation location and nearest model timestep. Originally 84 developed of data assimilation, it is a fantastic tool for model and data comparison. 85 Other Specific online diagnostics (not documented yet) are available in the model: output of all 86 the tendencies of the momentum and tracers equations, output of tracers tendencies 87 averaged over the time evolving mixed layer, output of the tendencies of the barotropic 88 vorticity equation, on-line floats trajectories... 81 Model outputs management and specific online diagnostics are described in chapters~\ref{DIA}. 82 The diagnostics includes the output of all the tendencies of the momentum and tracers equations, 83 the output of tracers tendencies averaged over the time evolving mixed layer, the output of 84 the tendencies of the barotropic vorticity equation, the computation of on-line floats trajectories... 85 Chapter~\ref{OBS} describes a tool which reads in observation files (profile temperature 86 and salinity, sea surface temperature, sea level anomaly and sea ice concentration) 87 and calculates an interpolated model equivalent value at the observation location 88 and nearest model timestep. Originally developed of data assimilation, it is a fantastic 89 tool for model and data comparison. Chapter~\ref{ASM} describes how increments 90 produced by data assimilation may be applied to the model equations. 91 Finally, Chapter~\ref{CFG} provides a brief introduction to the pre-defined model 92 configurations (water column model, ORCA and GYRE families of configurations). 89 93 90 94 The model is implemented in \textsc{Fortran 90}, with preprocessing (C-pre-processor). … … 102 106 around the code, the module names follow a three-letter rule. For example, \mdl{traldf} 103 107 is a module related to the TRAcers equation, computing the Lateral DiFfussion. 104 The complete list of module names is presented in Appendix~\ref{Apdx_D}. 108 %The complete list of module names is presented in Appendix~\ref{Apdx_D}. %====>>>> to be done ! 105 109 Furthermore, modules are organized in a few directories that correspond to their category, 106 110 as indicated by the first three letters of their name (Tab.~\ref{Tab_chap}). … … 114 118 \begin{table}[!t] 115 119 %\begin{center} \begin{tabular}{|p{143pt}|l|l|} \hline 120 \caption{ \label{Tab_chap} Organization of Chapters mimicking the one of the model directories. } 116 121 \begin{center} \begin{tabular}{|l|l|l|} \hline 117 122 Chapter \ref{STP} & - & model time STePping environment \\ \hline … … 123 128 Chapter \ref{LDF} & LDF & Lateral DiFfusion (parameterisations) \\ \hline 124 129 Chapter \ref{ZDF} & ZDF & vertical (Z) DiFfusion (parameterisations) \\ \hline 130 Chapter \ref{DIA} & DIA & I/O and DIAgnostics (also IOM, FLO and TRD) \\ \hline 125 131 Chapter \ref{OBS} & OBS & OBServation and model comparison \\ \hline 126 Chapter \ref{ASM} & ASM & ASsimilation increment \\ \hline 127 Chapter \ref{MISC} & ... & Miscellaneous topics (DIA, DTA, IOM, \\ 128 & & SOL, TRD, FLO...) \\ \hline 129 Chapter \ref{CFG} & - & predefined configurations \\ \hline 132 Chapter \ref{ASM} & ASM & ASsiMilation increment \\ \hline 133 Chapter \ref{MISC} & SOL & Miscellaneous topics (including solvers) \\ \hline 134 Chapter \ref{CFG} & - & predefined configurations (including C1D) \\ \hline 130 135 \end{tabular} 131 \caption{ \label{Tab_chap}132 Organization of Chapters which miminc the one of the model directories. }133 136 \end{center} \end{table} 134 137 %-------------------------------------------------------------------------------------------------------------- … … 141 144 142 145 $\bullet$ The main modifications from OPA v8 and NEMO/OPA v3.2 are :\\ 143 \\144 146 (1) transition to full native \textsc{Fortran} 90, deep code restructuring and drastic 145 147 reduction of CPP keys; \\ … … 150 152 coordinate and for the new options for horizontal pressure gradient computation with 151 153 a non-linear equation of state.}; \\ 152 (4) more choices for the treatment of the free surface: full explicit, split-explicit and filtered. \\154 (4) more choices for the treatment of the free surface: full explicit, split-explicit or filtered schemes. \\ 153 155 (5) suppression of the rigid-lid option;\\ 154 156 (6) non linear free surface option (associated with the rescaled height coordinate … … 162 164 (12) surface module (SBC) that simplify the way the ocean is forced and include two 163 165 bulk formulea (CLIO and CORE) and which includes an on-the-fly interpolation of input forcing fields\\ 164 (13) introduction of LIM 3, the new Louvain-la-Neuve sea-ice model (C-grid rheology and 166 (13) RGB light penetration and optional use of ocean color 167 (14) major changes in the TKE schemes: it now includes a Langmuir cell parameterization \citep{Axell_JGR02}, 168 the \citet{Mellor_Blumberg_JPO04} surface wave breaking parameterization, and has a time discretization 169 which is energetically consistent with the ocean model equations \citep{Burchard_OM02, Marsaleix_al_OM08}; \\ 170 (15) tidal mixing parametrisation (bottom intensification) + Indonesian specific tidal mixing \citep{Koch-Larrouy_al_GRL07}; \\ 171 (16) introduction of LIM-3, the new Louvain-la-Neuve sea-ice model (C-grid rheology and 165 172 new thermodynamics including bulk ice salinity) \citep{Vancoppenolle_al_OM09a, Vancoppenolle_al_OM09b} 166 173 167 174 \vspace{1cm} 168 $\bullet$ The main modifications from NEMO/OPA v3.2 and v3.2 are :\\ 169 \\ 175 $\bullet$ The main modifications from NEMO/OPA v3.2 and v3.3 are :\\ 170 176 (1) introduction of a modified leapfrog-Asselin filter time stepping scheme \citep{Leclair_Madec_OM09}; \\ 171 (2) additional scheme for iso-neutral mixing \citep{Griffies_al_JPO98}, although it is still a "work in progress"; \\ 172 (3) a rewriting of the bottom boundary scheme, following \citet{Campin_Goosse_Tel99}; \\ 173 (4) addition of the atmospheric pressure as an external forcing on both ocean and sea-ice dynamics; \\ 174 (5) addition of a diurnal cycle on solar radiation \citep{Bernie_al_CD07}; \\ 175 (6) addition of an on-line observation and model comparison (thanks to NEMOVAR project); \\ 176 (7) optional application of an assimilation increment (thanks to NEMOVAR project); \\ 177 (8) introduction of ..... 177 (2) additional scheme for iso-neutral mixing \citep{Griffies_al_JPO98}, although it is still a "work in progress"; \\ 178 (3) a rewriting of the bottom boundary layer scheme, following \citet{Campin_Goosse_Tel99}; \\ 179 (4) addition of a Generic Length Scale vertical mixing scheme, following \citet{Umlauf_Burchard_JMS03}; 180 (5) addition of the atmospheric pressure as an external forcing on both ocean and sea-ice dynamics; \\ 181 (6) addition of a diurnal cycle on solar radiation \citep{Bernie_al_CD07}; \\ 182 (7) river runoffs added through a non-zero depth, and having its own temperature and salinity; \\ 183 (8) CORE II normal year forcing set as the default forcing of ORCA2-LIM configuration ; \\ 184 (9) generalisation of the use of \mdl{fldread} for all input fields (ocean, climatology, sea-ice damping...) 185 (10) addition of an on-line observation and model comparison (thanks to NEMOVAR project); \\ 186 (11) optional application of an assimilation increment (thanks to NEMOVAR project); \\ 187 (12) coupling interface adjusted for WRF atmospheric model 188 (13) C-grid ice rheology now available fro both LIM-2 and LIM-3 \citep{Bouillon_al_OM09}; \\ 189 (14) a deep re-writting and simplification of the off-line tracer component (OFF\_SRC) ; \\ 190 (15) the merge of passive and active advection and diffusion modules \\ 191 (16) Use of the Flexible Configuration Manager (FCM) to build configurations, generate the Makefile and produce the executable ; \\ 192 (17) Linear-tangent and Adjoint component (TAM) added, phased with v3.0 178 193 179 194 \vspace{1cm}
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