From e8fc2b8636eb35e90d49d0374d9b6fcee19daefa Mon Sep 17 00:00:00 2001
From: Andrew Coward <acc@noc.ac.uk>
Date: Mon, 14 Feb 2022 21:56:20 +0000
Subject: [PATCH] Tidying in chap_DYN.tex and chap_DOM.tex
---
doc/latex/NEMO/subfiles/chap_DOM.tex | 22 +++++++++++-----------
doc/latex/NEMO/subfiles/chap_DYN.tex | 6 +++---
2 files changed, 14 insertions(+), 14 deletions(-)
diff --git a/doc/latex/NEMO/subfiles/chap_DOM.tex b/doc/latex/NEMO/subfiles/chap_DOM.tex
index 4683e57a8..18e850ea4 100644
--- a/doc/latex/NEMO/subfiles/chap_DOM.tex
+++ b/doc/latex/NEMO/subfiles/chap_DOM.tex
@@ -392,16 +392,16 @@ The explicit specification of a range of mesh-related fields are required for
the definition of a configuration.
These include:
-\begin{clines}
+\begin{forlines}
integer Ni0glo, NjOglo, jpkglo /* global domain sizes (without MPI halos) */
-logical l\_Iperio, l\_Jperio /* lateral global domain b.c.: i- j-periodicity */
-logical l\_NFold /* lateral global domain b.c.: North Pole folding */
-char(1) c\_NFtype /* type of North pole Folding: T or F point */
+logical l_Iperio, l_Jperio /* lateral global domain b.c.: i- j-periodicity */
+logical l_NFold /* lateral global domain b.c.: North Pole folding */
+char(1) c_NFtype /* type of North pole Folding: T or F point */
real glamt, glamu, glamv, glamf /* geographic longitude (t,u,v and f points respectively) */
real gphit, gphiu, gphiv, gphif /* geographic latitude */
real e1t, e1u, e1v, e1f /* horizontal scale factors */
real e2t, e2u, e2v, e2f /* horizontal scale factors */
-\end{clines}
+\end{forlines}
The values of the geographic longitude and latitude arrays at indices $i,j$ correspond to
the analytical expressions of the longitude $\lambda$ and latitude $\varphi$ as a function of $(i,j)$,
@@ -413,12 +413,12 @@ evaluated for the same arguments as $\lambda$ and $\varphi$.
%% =================================================================================================
\subsubsection{Optional fields}
-\begin{clines}
+\begin{forlines}
/* Optional: */
int ORCA, ORCA_index /* configuration name, configuration resolution */
double e1e2u, e1e2v /* U and V surfaces (if grid size reduction in some straits) */
double ff_f, ff_t /* Coriolis parameter (if not on the sphere) */
-\end{clines}
+\end{forlines}
\NEMO\ can support the local reduction of key strait widths by
altering individual values of e2u or e1v at the appropriate locations.
@@ -560,7 +560,7 @@ The explicit specification of a range of fields related to the vertical grid are
the definition of a configuration.
These include:
-\begin{clines}
+\begin{forlines}
int ln_zco, ln_zps, ln_sco /* flags for z-coord, z-coord with partial steps and s-coord */
int ln_isfcav /* flag for ice shelf cavities */
double e3t_1d, e3w_1d /* reference vertical scale factors at T and W points */
@@ -569,7 +569,7 @@ double e3uw_0, e3vw_0 /* vertical scale factors 3D coordinate
int bottom_level, top_level /* last wet T-points, 1st wet T-points (for ice shelf cavities) */
/* For reference: */
float bathy_metry /* bathymetry used in setting top and bottom levels */
-\end{clines}
+\end{forlines}
This set of vertical metrics is sufficient to describe the initial depth and thickness of
every gridcell in the model regardless of the choice of vertical coordinate.
@@ -639,11 +639,11 @@ it should be noted here that a successful use of these options requires
appropriate mask fields to be present in the domain configuration file.
Among the possibilities are:
-\begin{clines}
+\begin{forlines}
int closea_mask /* non-zero values in closed sea areas for optional masking */
int closea_mask_rnf /* non-zero values in closed sea areas with runoff locations (precip only) */
int closea_mask_emp /* non-zero values in closed sea areas with runoff locations (total emp) */
-\end{clines}
+\end{forlines}
%% =================================================================================================
\subsection{Output grid files}
diff --git a/doc/latex/NEMO/subfiles/chap_DYN.tex b/doc/latex/NEMO/subfiles/chap_DYN.tex
index d827a6c59..4d82795d3 100644
--- a/doc/latex/NEMO/subfiles/chap_DYN.tex
+++ b/doc/latex/NEMO/subfiles/chap_DYN.tex
@@ -916,9 +916,9 @@ As far as tracer conservation is concerned,
barotropic velocities used to advect tracers must also be updated at \textit{now} time step.
This implies to change the traditional order of computations in \NEMO:
most of momentum trends (including the barotropic mode calculation) updated first, tracers' after.
-This \textit{de facto} makes semi-implicit hydrostatic pressure gradient
-(see section \autoref{subsec:DYN_hpg_imp})
-and time splitting not compatible.
+%%This \textit{de facto} makes semi-implicit hydrostatic pressure gradient
+%%(see section \autoref{subsec:DYN_hpg_imp})
+%%and time splitting not compatible.
Advective barotropic velocities are obtained by using a secondary set of filtering weights,
uniquely defined from the filter coefficients used for the time averaging (\citet{shchepetkin.mcwilliams_OM05}).
Consistency between the time averaged continuity equation and the time stepping of tracers is here the key to
--
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