# Changeset 996

Ignore:
Timestamp:
2008-05-28T12:38:21+02:00 (13 years ago)
Message:

trunk - DOC update to correct error in previous update

Location:
trunk/DOC/TexFiles/Chapters
Files:
1 deleted
14 edited

Unmodified
Removed
• ## trunk/DOC/TexFiles/Chapters/Annex_A.tex

 r994 \label{Apdx_A} \minitoc In order to establish the set of Primitive Equation in curvilinear $s$-coordinates ($i.e.$
• ## trunk/DOC/TexFiles/Chapters/Annex_E.tex

 r707 The UBS advection scheme is an upstream biased third order scheme based on an upstream-biased parabolic interpolation. It is also known as Cell Averaged QUICK scheme (Quadratic Upstream Interpolation for Convective an upstream-biased parabolic interpolation. It is also known as Cell Averaged QUICK scheme (Quadratic Upstream Interpolation for Convective Kinematics). For example, in the $i$-direction : \begin{equation} \label{Eq_tra_adv_ubs2}
• ## trunk/DOC/TexFiles/Chapters/Chap_Conservation.tex

 r707 \end{equation} where $dv = e_1\, e_2\, e_3\, di\, dj\, dk$ is the volume element. (II.4.1a) means that $\varsigma$ is conserved. (II.4.1b) is obtained by an integration by part. It means that $\varsigma^2$ is conserved for a horizontally non-divergent flow. (II.4.1a) means that $\varsigma$ is conserved. (II.4.1b) is obtained by an integration by part. It means that $\varsigma^2$ is conserved for a horizontally non-divergent flow. (II.4.1c) is even satisfied locally since the vorticity term is orthogonal to the horizontal velocity. It means that the vorticity term has no
• ## trunk/DOC/TexFiles/Chapters/Chap_DOM.tex

 r994 %  - domclo:  closed sea and lakes.... management of closea sea area : specific to global configuration, both forced and coupled \gmcomment{STEVEN :maybe a picture of the directory structure in the introduction which could be referred to here, would help  ==> to be added} \gmcomment{STEVEN :maybe a picture of the directory structure in the introduction which could be referred to here, would help  ==> to be added} %%%%
• ## trunk/DOC/TexFiles/Chapters/Chap_DYN.tex

 r994 3D terms. %%% \gmcomment{STEVEN: not quite sure I've got the sense of the last sentence. does MISC correspond to "extracting tendency terms" or "vorticity balance"?} \gmcomment{STEVEN: not quite sure I've got the sense of the last sentence. does MISC correspond to "extracting tendency terms" or "vorticity balance"?} % ================================================================

 r994 \begin{figure}[!p] \label{Fig_LBC_shlat}  \begin{center} \includegraphics[width=0.90\textwidth]{./Figures/Fig_LBC_shlat.pdf} \caption {lateral boundary condition (a) free-slip ($shlat=0$) ; (b) no-slip ($shlat=2$) ; (c) "partial" free-slip ($0>>>>>>>>>>>>>>>>>>>>>>>>>>> • ## trunk/DOC/TexFiles/Chapters/Chap_LDF.tex  r994$\ $\newline % force a new ligne The lateral physics on momentum and tracer equations have been given in \S\ref{PE_zdf} and their discrete formulation in \S\ref{TRA_ldf} and \S\ref{DYN_ldf}). In this section we further discuss the choices that underlie each lateral physics option. Choosing one lateral physics means for the user defining, (1) the space and time variations of the eddy coefficients ; (2) the direction along which the lateral diffusive fluxes are evaluated (model level, geopotential or isopycnal surfaces); and (3) the type of operator used (harmonic, or biharmonic operators, and for tracers only, eddy induced advection on tracers). These three aspects of the lateral diffusion are set through namelist parameters and CPP keys (see the nam\_traldf and nam\_dynldf below). The lateral physics on momentum and tracer equations have been given in \S\ref{PE_zdf} and their discrete formulation in \S\ref{TRA_ldf} and \S\ref{DYN_ldf}). In this section we further discuss the choices that underlie each lateral physics option. Choosing one lateral physics means for the user defining, (1) the space and time variations of the eddy coefficients ; (2) the direction along which the lateral diffusive fluxes are evaluated (model level, geopotential or isopycnal surfaces); and (3) the type of operator used (harmonic, or biharmonic operators, and for tracers only, eddy induced advection on tracers). These three aspects of the lateral diffusion are set through namelist parameters and CPP keys (see the nam\_traldf and nam\_dynldf below). %-----------------------------------nam_traldf - nam_dynldf-------------------------------------------- \namdisplay{nam_traldf} • ## trunk/DOC/TexFiles/Chapters/Chap_MISC.tex  r994 -\left(C_{i+1,j}^{NS} + C_{i,j+1}^{EW} + C_{i,j}^{NS} + C_{i,j}^{EW} \right) { \left( \frac{\partial \psi}{\partial t } \right) }_{i,j} = B_{i,j} \end{multline} \eqref{Eq_solmat} is a linear symmetric system of equations. All the elements of the corresponding matrix \textbf{A} vanish except those of five diagonals. With \eqref{Eq_solmat} is a linear symmetric system of equations. All the elements of the corresponding matrix \textbf{A} vanish except those of five diagonals. With the natural ordering of the grid points (i.e. from west to east and from south to north), the structure of \textbf{A} is block-tridiagonal with • ## trunk/DOC/TexFiles/Chapters/Chap_Model_Basics.tex  r994 The ocean is a fluid that can be described to a good approximation by the primitive equations,$i.e.$the Navier-Stokes equations along with a nonlinear equation of state which couples the two active tracers (temperature and salinity) to the fluid velocity, plus the following additional assumptions made from scale considerations: The ocean is a fluid that can be described to a good approximation by the primitive equations,$i.e.$the Navier-Stokes equations along with a nonlinear equation of state which couples the two active tracers (temperature and salinity) to the fluid velocity, plus the following additional assumptions made from scale considerations: \textit{(1) spherical earth approximation: }the geopotential surfaces are assumed to be spheres so that gravity (local vertical) is parallel to the earth's radius • ## trunk/DOC/TexFiles/Chapters/Chap_Model_Basics_zstar.tex  r707 In that case, the free surface equation is nonlinear, and the variations of volume are fully taken into account. These coordinates systems is presented in a report \citep{Levier2007} available on the \NEMO web site. volume are fully taken into account. These coordinates systems is presented in a report \citep{Levier2007} available on the \NEMO web site. \colorbox{yellow}{ end of to be updated} • ## trunk/DOC/TexFiles/Chapters/Chap_SBC.tex  r994 The presence at the sea surface of an ice covered area modifies all the fluxes transmitted to the ocean. There are several way to handle sea-ice in the system depending on the value of the \np{nn{\_}ice} namelist parameter. transmitted to the ocean. There are several way to handle sea-ice in the system depending on the value of the \np{nn{\_}ice} namelist parameter. \begin{description} \item[nn{\_}ice = 0] there will never be sea-ice in the computational domain. This is a typical namelist value used for tropical ocean domain. The surface fluxes are simply specified for an ice-free ocean. No specific things are done for sea-ice. • ## trunk/DOC/TexFiles/Chapters/Chap_TRA.tex  r994 where$c_u$is a flux limiter function taking values between 0 and 1. There exist many ways to define$c_u$, each correcponding to a different total variance decreasing scheme. The one chosen in \NEMO is described in \citet{Zalesak1979}.$c_u$only departs from$1$when the advective term variance decreasing scheme. The one chosen in \NEMO is described in \citet{Zalesak1979}.$c_u$only departs from$1$when the advective term produces a local extremum in the tracer field. The resulting scheme is quite expensive but \emph{positive}. It can be used on both active and passive tracers. • ## trunk/DOC/TexFiles/Chapters/Chap_ZDF.tex  r994 This update is done in \mdl{zdfbfr}. The coefficients that control the strength of the non-linear bottom friction are initialized as namelist parameters:$C_D$= \np{bfri2}, and$e_b$=\np{bfeb2}. % ================================================================ non-linear bottom friction are initialized as namelist parameters:$C_D$= \np{bfri2}, and$e_b$=\np{bfeb2}. % ================================================================ • ## trunk/DOC/TexFiles/Chapters/Introduction.tex  r994 (www.locean-ipsl.upmc.fr/NEMO). The ocean component of \NEMO has been developed from the OPA model, release 8.2, described in \citet{Madec1998}. This model has been used for a wide range of applications, both regional or global, as a forced ocean model and as a model coupled with the atmosphere. A complete list of references is found on the \NEMO web site. The ocean component of \NEMO has been developed from the OPA model, release 8.2, described in \citet{Madec1998}. This model has been used for a wide range of applications, both regional or global, as a forced ocean model and as a model coupled with the atmosphere. A complete list of references is found on the \NEMO web site. This manual is organised in as follows. Chapter~\ref{PE} presents the model basics,$i.e.$the equations and their assumptions, the vertical coordinates used, and the subgrid scale physics. This part deals with the continuous equations of the model (primitive equations, with potential temperature, salinity and an equation of state). The equations are written in a curvilinear coordinate system, with a choice of vertical (primitive equations, with potential temperature, salinity and an equation of state). The equations are written in a curvilinear coordinate system, with a choice of vertical coordinates ($z$or$s$, with the rescaled height coordinate formulation \textit{z*}, or \textit{s*}). Momentum equations are formulated in the vector invariant form or in the OPA, like all research tools, is in perpetual evolution. The present document describes the OPA version include in the release 2.3 of NEMO. This release differs significantly the OPA version include in the release 3.0 of NEMO. This release differs significantly from version 8, documented in \citet{Madec1998}. The main modifications are :\\ (1) transition to full native \textsc{Fortran} 90, deep code restructuring and drastic reduction of CPP keys; \\ (1) transition to full native \textsc{Fortran} 90, deep code restructuring and drastic reduction of CPP keys; \\ (2) introduction of partial step representation of bottom topography \citep{Barnier_al_OD06}; \\ (3) partial reactivation of a terrain-following vertical coordinate ($s$- and hybrid$s$-$z$) with the addition of several options for pressure gradient computation \footnote{Partial support of$s$-coordinate: there is presently no support for neutral physics in$s$-coordinate and for the new options for horizontal pressure gradient computation with a non-linear equation of state.}; \\ (4) more choices for the treatment of the free surface: full explicit, split-explicit , filtered and rigid-lid; \\ (5) non linear free surface option (associated with the rescaled height coordinate \textit{z*} or \textit{s*}); \\ (3) partial reactivation of a terrain-following vertical coordinate ($s$- and hybrid$s$-$z$) with the addition of several options for pressure gradient computation \footnote{Partial support of$s$-coordinate: there is presently no support for neutral physics in$s\$- coordinate and for the new options for horizontal pressure gradient computation with a non-linear equation of state.}; \\ (4) more choices for the treatment of the free surface: full explicit, split-explicit , filtered and rigid-lid; \\ (5) non linear free surface option (associated with the rescaled height coordinate \textit{z*} or  \textit{s*}); \\ (6) additional schemes for vector and flux forms of the momentum  advection; \\ (7) additional advection schemes for tracers; \\ (10) rewriting of the I/O management; \\ (11) OASIS 3 and 4 couplers interfacing with atmospheric global circulation models. (12) surface module (SBC) that simplify the way the ocean is forced and include two bulk formulea (CLIO and CORE) (13) introduction of LIM 3, the new Louvain-la-Neuve sea-ice model (C-grid rheology and new thermodynamics including bulk ice salinity) In addition, several minor modifications in the coding have been introduced with the constant concern of improving performance on both scalar and vector computers. At the time of this writing, the current release is NEMO 2.3. The new surface module described in this document is not yet part of the current distribution. \vspace{1cm} \colorbox{red}{Red color}: not in the current reference version (v2.3) but expected soon. \colorbox{yellow}{Yellow color}: missing references, text to be updated.
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