Changeset 12063 for NEMO/branches/2019/dev_ASINTER-01-05_merged/doc/latex/NEMO/subfiles/chap_SBC.tex

Timestamp:

2019-12-05T11:46:38+01:00 (4 years ago)

Author:

gsamson

Message:

dev_ASINTER-01-05_merged: update branch with dev_r11085_ASINTER-05_Brodeau_Advanced_Bulk@r12061 and trunk@r12055 + bugfix for agrif compatibility in sbcblk: sette tests with ref configs ok except ABL restartability (under investigation) (tickets #2159 and #2131)

Location:

NEMO/branches/2019/dev_ASINTER-01-05_merged/doc

Files:

• . (modified) (1 prop)
• latex (modified) (1 prop)
• latex/NEMO (modified) (1 prop)
• latex/NEMO/subfiles (modified) (1 prop)
• latex/NEMO/subfiles/chap_SBC.tex (modified) (41 diffs)

NEMO/branches/2019/dev_ASINTER-01-05_merged/doc/latex/NEMO/subfiles

@@ -1 @@
-*.aux
-*.bbl
-*.blg
-*.dvi
-*.fdb*
-*.fls
-*.idx
+*.ind
 *.ilg
-*.ind
-*.log
-*.maf
-*.mtc*
-*.out
-*.pdf
-*.toc
-_minted-*

@@ -1 @@
-*.aux
-*.bbl
-*.blg
-*.dvi
-*.fdb*
-*.fls
-*.idx
+*.ind
 *.ilg
-*.ind
-*.log
-*.maf
-*.mtc*
-*.out
-*.pdf
-*.toc
-_minted-*

NEMO/branches/2019/dev_ASINTER-01-05_merged/doc/latex/NEMO/subfiles/chap_SBC.tex

@@ -1 +1 @@
 \documentclass[../main/NEMO_manual]{subfiles}
+\usepackage{fontspec}
+\usepackage{fontawesome}
 
 \begin{document}
-% ================================================================
-% Chapter —— Surface Boundary Condition (SBC, ISF, ICB) 
-% ================================================================
-\chapter{Surface Boundary Condition (SBC, ISF, ICB)}
+
+\chapter{Surface Boundary Condition (SBC, SAS, ISF, ICB)}
 \label{chap:SBC}
-\minitoc
-
-\newpage
-
-%---------------------------------------namsbc--------------------------------------------------
-
-\nlst{namsbc}
-%--------------------------------------------------------------------------------------------------------------
-
-The ocean needs six fields as surface boundary condition:
+
+\thispagestyle{plain}
+
+\chaptertoc
+
+\paragraph{Changes record} ~\\
+
+{\footnotesize
+  \begin{tabularx}{\textwidth}{l||X|X}
+    Release & Author(s) & Modifications \\
+    \hline
+    {\em   4.0} & {\em ...} & {\em ...} \\
+    {\em   3.6} & {\em ...} & {\em ...} \\
+    {\em   3.4} & {\em ...} & {\em ...} \\
+    {\em <=3.4} & {\em ...} & {\em ...}
+  \end{tabularx}
+}
+
+\clearpage
+
+\begin{listing}
+  \nlst{namsbc}
+  \caption{\forcode{&namsbc}}
+  \label{lst:namsbc}
+\end{listing}
+
+The ocean needs seven fields as surface boundary condition:
+
 \begin{itemize}
-\item
-  the two components of the surface ocean stress $\left( {\tau_u \;,\;\tau_v} \right)$
-\item
-  the incoming solar and non solar heat fluxes $\left( {Q_{ns} \;,\;Q_{sr} } \right)$
-\item
-  the surface freshwater budget $\left( {\textit{emp}} \right)$
-\item
-  the surface salt flux associated with freezing/melting of seawater $\left( {\textit{sfx}} \right)$
+\item the two components of the surface ocean stress $\left( {\tau_u \;,\;\tau_v} \right)$
+\item the incoming solar and non solar heat fluxes $\left( {Q_{ns} \;,\;Q_{sr} } \right)$
+\item the surface freshwater budget $\left( {\textit{emp}} \right)$
+\item the surface salt flux associated with freezing/melting of seawater $\left( {\textit{sfx}} \right)$
+\item the atmospheric pressure at the ocean surface $\left( p_a \right)$
 \end{itemize}
-plus an optional field:
+
+Four different ways are available to provide the seven fields to the ocean. They are controlled by
+namelist \nam{sbc}{sbc} variables:
+
 \begin{itemize}
-   \item the atmospheric pressure at the ocean surface $\left( p_a \right)$
+\item a bulk formulation (\np[=.true.]{ln_blk}{ln\_blk}), featuring a selection of four bulk parameterization algorithms,
+\item a flux formulation (\np[=.true.]{ln_flx}{ln\_flx}),
+\item a coupled or mixed forced/coupled formulation (exchanges with a atmospheric model via the OASIS coupler),
+(\np{ln_cpl}{ln\_cpl} or \np[=.true.]{ln_mixcpl}{ln\_mixcpl}),
+\item a user defined formulation (\np[=.true.]{ln_usr}{ln\_usr}).
 \end{itemize}
 
-Four different ways to provide the first six fields to the ocean are available which are controlled by
-namelist \ngn{namsbc} variables:
-an analytical formulation (\np{ln\_ana}\forcode{ = .true.}),
-a flux formulation (\np{ln\_flx}\forcode{ = .true.}),
-a bulk formulae formulation (CORE (\np{ln\_blk\_core}\forcode{ = .true.}),
-CLIO (\np{ln\_blk\_clio}\forcode{ = .true.}) bulk formulae) and
-a coupled or mixed forced/coupled formulation (exchanges with a atmospheric model via the OASIS coupler)
-(\np{ln\_cpl} or \np{ln\_mixcpl}\forcode{ = .true.}). 
-When used (\ie \np{ln\_apr\_dyn}\forcode{ = .true.}),
-the atmospheric pressure forces both ocean and ice dynamics.
-
-The frequency at which the forcing fields have to be updated is given by the \np{nn\_fsbc} namelist parameter.
-When the fields are supplied from data files (flux and bulk formulations),
-the input fields need not be supplied on the model grid.
-Instead a file of coordinates and weights can be supplied which maps the data from the supplied grid to
+The frequency at which the forcing fields have to be updated is given by the \np{nn_fsbc}{nn\_fsbc} namelist parameter.
+
+When the fields are supplied from data files (bulk, flux and mixed formulations),
+the input fields do not need to be supplied on the model grid.
+Instead, a file of coordinates and weights can be supplied to map the data from the input fields grid to
 the model points (so called "Interpolation on the Fly", see \autoref{subsec:SBC_iof}).
-If the Interpolation on the Fly option is used, input data belonging to land points (in the native grid),
-can be masked to avoid spurious results in proximity of the coasts as
+If the "Interpolation on the Fly" option is used, input data belonging to land points (in the native grid)
+should be masked or filled to avoid spurious results in proximity of the coasts, as
 large sea-land gradients characterize most of the atmospheric variables.
 
 In addition, the resulting fields can be further modified using several namelist options.
-These options control 
+These options control:
+
 \begin{itemize}
-\item
-  the rotation of vector components supplied relative to an east-north coordinate system onto
-  the local grid directions in the model;
-\item
-  the addition of a surface restoring term to observed SST and/or SSS (\np{ln\_ssr}\forcode{ = .true.});
-\item
-  the modification of fluxes below ice-covered areas (using observed ice-cover or a sea-ice model)
-  (\np{nn\_ice}\forcode{ = 0..3});
-\item
-  the addition of river runoffs as surface freshwater fluxes or lateral inflow (\np{ln\_rnf}\forcode{ = .true.});
-\item
-  the addition of isf melting as lateral inflow (parameterisation) or
-  as fluxes applied at the land-ice ocean interface (\np{ln\_isf}) ; 
-\item
-  the addition of a freshwater flux adjustment in order to avoid a mean sea-level drift
-  (\np{nn\_fwb}\forcode{ = 0..2});
-\item
-  the transformation of the solar radiation (if provided as daily mean) into a diurnal cycle
-  (\np{ln\_dm2dc}\forcode{ = .true.});
-\item
-  a neutral drag coefficient can be read from an external wave model (\np{ln\_cdgw}\forcode{ = .true.});
-\item
-  the Stokes drift rom an external wave model can be accounted (\np{ln\_sdw}\forcode{ = .true.}); 
-\item
-  the Stokes-Coriolis term can be included (\np{ln\_stcor}\forcode{ = .true.});
-\item
-  the surface stress felt by the ocean can be modified by surface waves (\np{ln\_tauwoc}\forcode{ = .true.}).
+\item the rotation of vector components supplied relative to an east-north coordinate system onto
+  the local grid directions in the model,
+\item the use of a land/sea mask for input fields (\np[=.true.]{nn_lsm}{nn\_lsm}),
+\item the addition of a surface restoring term to observed SST and/or SSS (\np[=.true.]{ln_ssr}{ln\_ssr}),
+\item the modification of fluxes below ice-covered areas (using climatological ice-cover or a sea-ice model)
+  (\np[=0..3]{nn_ice}{nn\_ice}),
+\item the addition of river runoffs as surface freshwater fluxes or lateral inflow (\np[=.true.]{ln_rnf}{ln\_rnf}),
+\item the addition of ice-shelf melting as lateral inflow (parameterisation) or
+  as fluxes applied at the land-ice ocean interface (\np[=.true.]{ln_isf}{ln\_isf}),
+\item the addition of a freshwater flux adjustment in order to avoid a mean sea-level drift
+  (\np[=0..2]{nn_fwb}{nn\_fwb}),
+\item the transformation of the solar radiation (if provided as daily mean) into an analytical diurnal cycle
+  (\np[=.true.]{ln_dm2dc}{ln\_dm2dc}),
+\item the activation of wave effects from an external wave model  (\np[=.true.]{ln_wave}{ln\_wave}),
+\item a neutral drag coefficient is read from an external wave model (\np[=.true.]{ln_cdgw}{ln\_cdgw}),
+\item the Stokes drift from an external wave model is accounted for (\np[=.true.]{ln_sdw}{ln\_sdw}),
+\item the choice of the Stokes drift profile parameterization (\np[=0..2]{nn_sdrift}{nn\_sdrift}),
+\item the surface stress given to the ocean is modified by surface waves (\np[=.true.]{ln_tauwoc}{ln\_tauwoc}),
+\item the surface stress given to the ocean is read from an external wave model (\np[=.true.]{ln_tauw}{ln\_tauw}),
+\item the Stokes-Coriolis term is included (\np[=.true.]{ln_stcor}{ln\_stcor}),
+\item the light penetration in the ocean (\np[=.true.]{ln_traqsr}{ln\_traqsr} with namelist \nam{tra_qsr}{tra\_qsr}),
+\item the atmospheric surface pressure gradient effect on ocean and ice dynamics (\np[=.true.]{ln_apr_dyn}{ln\_apr\_dyn} with namelist \nam{sbc_apr}{sbc\_apr}),
+\item the effect of sea-ice pressure on the ocean (\np[=.true.]{ln_ice_embd}{ln\_ice\_embd}).
 \end{itemize}
 
-In this chapter, we first discuss where the surface boundary condition appears in the model equations.
-Then we present the five ways of providing the surface boundary condition, 
-followed by the description of the atmospheric pressure and the river runoff. 
-Next the scheme for interpolation on the fly is described.
+In this chapter, we first discuss where the surface boundary conditions appear in the model equations.
+Then we present the three ways of providing the surface boundary conditions,
+followed by the description of the atmospheric pressure and the river runoff.
+Next, the scheme for interpolation on the fly is described.
 Finally, the different options that further modify the fluxes applied to the ocean are discussed.
-One of these is modification by icebergs (see \autoref{sec:ICB_icebergs}),
+One of these is modification by icebergs (see \autoref{sec:SBC_ICB_icebergs}),
 which act as drifting sources of fresh water.
-Another example of modification is that due to the ice shelf melting/freezing (see \autoref{sec:SBC_isf}), 
+Another example of modification is that due to the ice shelf melting/freezing (see \autoref{sec:SBC_isf}),
 which provides additional sources of fresh water.
 
-
-% ================================================================
-% Surface boundary condition for the ocean
-% ================================================================
+%% =================================================================================================
 \section{Surface boundary condition for the ocean}
-\label{sec:SBC_general}
+\label{sec:SBC_ocean}
 
 The surface ocean stress is the stress exerted by the wind and the sea-ice on the ocean.
 It is applied in \mdl{dynzdf} module as a surface boundary condition of the computation of
-the momentum vertical mixing trend (see \autoref{eq:dynzdf_sbc} in \autoref{sec:DYN_zdf}).
+the momentum vertical mixing trend (see \autoref{eq:DYN_zdf_sbc} in \autoref{sec:DYN_zdf}).
 As such, it has to be provided as a 2D vector interpolated onto the horizontal velocity ocean mesh,
-\ie resolved onto the model (\textbf{i},\textbf{j}) direction at $u$- and $v$-points.
+\ie\ resolved onto the model (\textbf{i},\textbf{j}) direction at $u$- and $v$-points.
 
 The surface heat flux is decomposed into two parts, a non solar and a solar heat flux,
 $Q_{ns}$ and $Q_{sr}$, respectively.
 The former is the non penetrative part of the heat flux
-(\ie the sum of sensible, latent and long wave heat fluxes plus
-the heat content of the mass exchange with the atmosphere and sea-ice).
+(\ie\ the sum of sensible, latent and long wave heat fluxes plus
+the heat content of the mass exchange between the ocean and sea-ice).
 It is applied in \mdl{trasbc} module as a surface boundary condition trend of
 the first level temperature time evolution equation
-(see \autoref{eq:tra_sbc} and \autoref{eq:tra_sbc_lin} in \autoref{subsec:TRA_sbc}). 
+(see \autoref{eq:TRA_sbc} and \autoref{eq:TRA_sbc_lin} in \autoref{subsec:TRA_sbc}).
 The latter is the penetrative part of the heat flux.
-It is applied as a 3D trends of the temperature equation (\mdl{traqsr} module) when
-\np{ln\_traqsr}\forcode{ = .true.}.
+It is applied as a 3D trend of the temperature equation (\mdl{traqsr} module) when
+\np[=.true.]{ln_traqsr}{ln\_traqsr}.
 The way the light penetrates inside the water column is generally a sum of decreasing exponentials
-(see \autoref{subsec:TRA_qsr}). 
+(see \autoref{subsec:TRA_qsr}).
 
 The surface freshwater budget is provided by the \textit{emp} field.
 It represents the mass flux exchanged with the atmosphere (evaporation minus precipitation) and
 possibly with the sea-ice and ice shelves (freezing minus melting of ice).
-It affects both the ocean in two different ways:
-$(i)$  it changes the volume of the ocean and therefore appears in the sea surface height equation as
-a volume flux, and 
+It affects the ocean in two different ways:
+$(i)$  it changes the volume of the ocean, and therefore appears in the sea surface height equation as      %GS: autoref ssh equation to be added
+a volume flux, and
 $(ii)$ it changes the surface temperature and salinity through the heat and salt contents of
-the mass exchanged with the atmosphere, the sea-ice and the ice shelves. 
-
+the mass exchanged with atmosphere, sea-ice and ice shelves.
 
 %\colorbox{yellow}{Miss: }
-%
-%A extensive description of all namsbc namelist (parameter that have to be 
+%A extensive description of all namsbc namelist (parameter that have to be
 %created!)
-%
-%Especially the \np{nn\_fsbc}, the \mdl{sbc\_oce} module (fluxes + mean sst sss ssu 
-%ssv) \ie information required by flux computation or sea-ice
-%
-%\mdl{sbc\_oce} containt the definition in memory of the 7 fields (6+runoff), add 
+%Especially the \np{nn_fsbc}{nn\_fsbc}, the \mdl{sbc\_oce} module (fluxes + mean sst sss ssu
+%ssv) \ie\ information required by flux computation or sea-ice
+%\mdl{sbc\_oce} containt the definition in memory of the 7 fields (6+runoff), add
 %a word on runoff: included in surface bc or add as lateral obc{\ldots}.
-%
 %Sbcmod manage the ``providing'' (fourniture) to the ocean the 7 fields
-%
-%Fluxes update only each nf{\_}sbc time step (namsbc) explain relation 
-%between nf{\_}sbc and nf{\_}ice, do we define nf{\_}blk??? ? only one 
-%nf{\_}sbc
-%
+%Fluxes update only each nf\_sbc time step (namsbc) explain relation
+%between nf\_sbc and nf\_ice, do we define nf\_blk??? ? only one
+%nf\_sbc
 %Explain here all the namlist namsbc variable{\ldots}.
-% 
 % explain : use or not of surface currents
-%
 %\colorbox{yellow}{End Miss }
 
 The ocean model provides, at each time step, to the surface module (\mdl{sbcmod})
-the surface currents, temperature and salinity.  
-These variables are averaged over \np{nn\_fsbc} time-step (\autoref{tab:ssm}), and
-it is these averaged fields which are used to computes the surface fluxes at a frequency of \np{nn\_fsbc} time-step.
-
-
-%-------------------------------------------------TABLE---------------------------------------------------
+the surface currents, temperature and salinity.
+These variables are averaged over \np{nn_fsbc}{nn\_fsbc} time-step (\autoref{tab:SBC_ssm}), and
+these averaged fields are used to compute the surface fluxes at the frequency of \np{nn_fsbc}{nn\_fsbc} time-steps.
+
 \begin{table}[tb]
-  \begin{center}
-    \begin{tabular}{|l|l|l|l|}
-      \hline
-      Variable description             & Model variable  & Units  & point \\  \hline
-      i-component of the surface current  & ssu\_m & $m.s^{-1}$   & U \\   \hline
-      j-component of the surface current  & ssv\_m & $m.s^{-1}$   & V \\   \hline
-      Sea surface temperature          & sst\_m & \r{}$K$      & T \\   \hline
-      Sea surface salinty              & sss\_m & $psu$        & T \\   \hline
-    \end{tabular}
-    \caption{
-      \protect\label{tab:ssm}
-      Ocean variables provided by the ocean to the surface module (SBC).
-      The variable are averaged over nn{\_}fsbc time step,
-      \ie the frequency of computation of surface fluxes.
-    }
-  \end{center}
+  \centering
+  \begin{tabular}{|l|l|l|l|}
+    \hline
+    Variable description                           & Model variable  & Units  & point                 \\
+    \hline
+    i-component of the surface current & ssu\_m               & $m.s^{-1}$     & U     \\
+    \hline
+    j-component of the surface current & ssv\_m               & $m.s^{-1}$     & V     \\
+    \hline
+    Sea surface temperature                  & sst\_m               & \r{}$K$              & T     \\\hline
+    Sea surface salinty                         & sss\_m               & $psu$              & T     \\   \hline
+  \end{tabular}
+  \caption[Ocean variables provided to the surface module)]{
+    Ocean variables provided to the surface module (\texttt{SBC}).
+    The variable are averaged over \protect\np{nn_fsbc}{nn\_fsbc} time-step,
+    \ie\ the frequency of computation of surface fluxes.}
+  \label{tab:SBC_ssm}
 \end{table}
-%--------------------------------------------------------------------------------------------------------------
-
-%\colorbox{yellow}{Penser a} mettre dans le restant l'info nn{\_}fsbc ET nn{\_}fsbc*rdt de sorte de reinitialiser la moyenne si on change la frequence ou le pdt
-
-
-% ================================================================
-%       Input Data 
-% ================================================================
+
+%\colorbox{yellow}{Penser a} mettre dans le restant l'info nn\_fsbc ET nn\_fsbc*rdt de sorte de reinitialiser la moyenne si on change la frequence ou le pdt
+
+%% =================================================================================================
 \section{Input data generic interface}
 \label{sec:SBC_input}
 
 A generic interface has been introduced to manage the way input data
-(2D or 3D fields, like surface forcing or ocean T and S) are specify in \NEMO.
-This task is archieved by \mdl{fldread}.
-The module was design with four main objectives in mind: 
+(2D or 3D fields, like surface forcing or ocean T and S) are specified in \NEMO.
+This task is achieved by \mdl{fldread}.
+The module is designed with four main objectives in mind:
 \begin{enumerate}
-\item
-  optionally provide a time interpolation of the input data at model time-step, whatever their input frequency is,
+\item optionally provide a time interpolation of the input data every specified model time-step, whatever their input frequency is,
   and according to the different calendars available in the model.
-\item
-  optionally provide an on-the-fly space interpolation from the native input data grid to the model grid.
-\item
-  make the run duration independent from the period cover by the input files.
-\item
-  provide a simple user interface and a rather simple developer interface by
-  limiting the number of prerequisite information. 
-\end{enumerate}  
-
-As a results the user have only to fill in for each variable a structure in the namelist file to
+\item optionally provide an on-the-fly space interpolation from the native input data grid to the model grid.
+\item make the run duration independent from the period cover by the input files.
+\item provide a simple user interface and a rather simple developer interface by
+  limiting the number of prerequisite informations.
+\end{enumerate}
+
+As a result, the user has only to fill in for each variable a structure in the namelist file to
 define the input data file and variable names, the frequency of the data (in hours or months),
 whether its is climatological data or not, the period covered by the input file (one year, month, week or day),
-and three additional parameters for on-the-fly interpolation.
+and three additional parameters for the on-the-fly interpolation.
 When adding a new input variable, the developer has to add the associated structure in the namelist,
 read this information by mirroring the namelist read in \rou{sbc\_blk\_init} for example,
 and simply call \rou{fld\_read} to obtain the desired input field at the model time-step and grid points.
 
-The only constraints are that the input file is a NetCDF file, the file name follows a nomenclature 
+The only constraints are that the input file is a NetCDF file, the file name follows a nomenclature
 (see \autoref{subsec:SBC_fldread}), the period it cover is one year, month, week or day, and,
 if on-the-fly interpolation is used, a file of weights must be supplied (see \autoref{subsec:SBC_iof}).
 
 Note that when an input data is archived on a disc which is accessible directly from the workspace where
-the code is executed, then the use can set the \np{cn\_dir} to the pathway leading to the data.
-By default, the data are assumed to have been copied so that cn\_dir='./'.
-
-% -------------------------------------------------------------------------------------------------------------
-% Input Data specification (\mdl{fldread})
-% -------------------------------------------------------------------------------------------------------------
-\subsection[Input data specification (\textit{fldread.F90})]
-{Input data specification (\protect\mdl{fldread})}
+the code is executed, then the user can set the \np{cn_dir}{cn\_dir} to the pathway leading to the data.
+By default, the data are assumed to be in the same directory as the executable, so that cn\_dir='./'.
+
+%% =================================================================================================
+\subsection[Input data specification (\textit{fldread.F90})]{Input data specification (\protect\mdl{fldread})}
 \label{subsec:SBC_fldread}
 
 The structure associated with an input variable contains the following information:
 \begin{forlines}
-!  file name  ! frequency (hours) ! variable  ! time interp. !  clim  ! 'yearly'/ ! weights  ! rotation ! land/sea mask ! 
+!  file name  ! frequency (hours) ! variable  ! time interp. !  clim  ! 'yearly'/ ! weights  ! rotation ! land/sea mask !
 !             !  (if <0  months)  !   name    !   (logical)  !  (T/F) ! 'monthly' ! filename ! pairing  ! filename      !
 \end{forlines}
-where 
-\begin{description}  
-\item[File name]:
-  the stem name of the NetCDF file to be open.
+where
+\begin{description}
+\item [File name]: the stem name of the NetCDF file to be opened.
   This stem will be completed automatically by the model, with the addition of a '.nc' at its end and
   by date information and possibly a prefix (when using AGRIF).
-  Tab.\autoref{tab:fldread} provides the resulting file name in all possible cases according to
+  \autoref{tab:SBC_fldread} provides the resulting file name in all possible cases according to
   whether it is a climatological file or not, and to the open/close frequency (see below for definition).
-
-%--------------------------------------------------TABLE--------------------------------------------------
   \begin{table}[htbp]
-    \begin{center}
-      \begin{tabular}{|l|c|c|c|}
-        \hline
-        & daily or weekLLL         & monthly                   &   yearly          \\   \hline
-        \np{clim}\forcode{ = .false.}  & fn\_yYYYYmMMdDD.nc  &   fn\_yYYYYmMM.nc   &   fn\_yYYYY.nc  \\   \hline
-        \np{clim}\forcode{ = .true.}         & not possible                  &  fn\_m??.nc             &   fn                \\   \hline
-      \end{tabular}
-    \end{center}
-    \caption{
-      \protect\label{tab:fldread}
-      naming nomenclature for climatological or interannual input file, as a function of the Open/close frequency.
+    \centering
+    \begin{tabular}{|l|c|c|c|}
+      \hline
+                                  &  daily or weekLL     &  monthly           &  yearly        \\
+      \hline
+      \np[=.false.]{clim}{clim} &  fn\_yYYYYmMMdDD.nc  &  fn\_yYYYYmMM.nc   &  fn\_yYYYY.nc  \\
+      \hline
+      \np[=.true.]{clim}{clim}  &  not possible        &  fn\_m??.nc        &  fn            \\
+      \hline
+    \end{tabular}
+    \caption[Naming nomenclature for climatological or interannual input file]{
+      Naming nomenclature for climatological or interannual input file,
+      as a function of the open/close frequency.
       The stem name is assumed to be 'fn'.
       For weekly files, the 'LLL' corresponds to the first three letters of the first day of the week
-      (\ie 'sun','sat','fri','thu','wed','tue','mon').
-      The 'YYYY', 'MM' and 'DD' should be replaced by the actual year/month/day, always coded with 4 or 2 digits.
-      Note that (1) in mpp, if the file is split over each subdomain, the suffix '.nc' is replaced by '\_PPPP.nc',
+      (\ie\ 'sun','sat','fri','thu','wed','tue','mon').
+      The 'YYYY', 'MM' and 'DD' should be replaced by the actual year/month/day,
+      always coded with 4 or 2 digits.
+      Note that (1) in mpp, if the file is split over each subdomain,
+      the suffix '.nc' is replaced by '\_PPPP.nc',
       where 'PPPP' is the process number coded with 4 digits;
-      (2) when using AGRIF, the prefix '\_N' is added to files, where 'N'  is the child grid number.
+      (2) when using AGRIF, the prefix '\_N' is added to files, where 'N' is the child grid number.
     }
+    \label{tab:SBC_fldread}
   \end{table}
-%--------------------------------------------------------------------------------------------------------------
-  
-
-\item[Record frequency]:
-  the frequency of the records contained in the input file.
+\item [Record frequency]: the frequency of the records contained in the input file.
   Its unit is in hours if it is positive (for example 24 for daily forcing) or in months if negative
   (for example -1 for monthly forcing or -12 for annual forcing).
-  Note that this frequency must really be an integer and not a real.
-  On some computers, seting it to '24.' can be interpreted as 240!
-
-\item[Variable name]:
-  the name of the variable to be read in the input NetCDF file.
-
-\item[Time interpolation]:
-  a logical to activate, or not, the time interpolation.
+  Note that this frequency must REALLY be an integer and not a real.
+  On some computers, setting it to '24.' can be interpreted as 240!
+\item [Variable name]: the name of the variable to be read in the input NetCDF file.
+\item [Time interpolation]: a logical to activate, or not, the time interpolation.
   If set to 'false', the forcing will have a steplike shape remaining constant during each forcing period.
   For example, when using a daily forcing without time interpolation, the forcing remaining constant from
   00h00'00'' to 23h59'59".
   If set to 'true', the forcing will have a broken line shape.
-  Records are assumed to be dated the middle of the forcing period.
+  Records are assumed to be dated at the middle of the forcing period.
   For example, when using a daily forcing with time interpolation,
-  linear interpolation will be performed between mid-day of two consecutive days. 
-
-\item[Climatological forcing]:
-  a logical to specify if a input file contains climatological forcing which can be cycle in time,
+  linear interpolation will be performed between mid-day of two consecutive days.
+\item [Climatological forcing]: a logical to specify if a input file contains climatological forcing which can be cycle in time,
   or an interannual forcing which will requires additional files if
-  the period covered by the simulation exceed the one of the file.
-  See the above the file naming strategy which impacts the expected name of the file to be opened. 
-
-\item[Open/close frequency]:
-  the frequency at which forcing files must be opened/closed.
+  the period covered by the simulation exceeds the one of the file.
+  See the above file naming strategy which impacts the expected name of the file to be opened.
+\item [Open/close frequency]: the frequency at which forcing files must be opened/closed.
   Four cases are coded:
   'daily', 'weekLLL' (with 'LLL' the first 3 letters of the first day of the week), 'monthly' and 'yearly' which
@@ -302 +277 @@
   Files are assumed to contain data from the beginning of the open/close period.
   For example, the first record of a yearly file containing daily data is Jan 1st even if
-  the experiment is not starting at the beginning of the year. 
-
-\item[Others]:
-  'weights filename', 'pairing rotation' and 'land/sea mask' are associated with
+  the experiment is not starting at the beginning of the year.
+\item [Others]:  'weights filename', 'pairing rotation' and 'land/sea mask' are associated with
   on-the-fly interpolation which is described in \autoref{subsec:SBC_iof}.
-
 \end{description}
 
@@ -315 +287 @@
 the date of the records read in the input files.
 Following \citet{leclair.madec_OM09}, the date of a time step is set at the middle of the time step.
-For example, for an experiment starting at 0h00'00" with a one hour time-step,
+For example, for an experiment starting at 0h00'00" with a one-hour time-step,
 a time interpolation will be performed at the following time: 0h30'00", 1h30'00", 2h30'00", etc.
 However, for forcing data related to the surface module,
-values are not needed at every time-step but at every \np{nn\_fsbc} time-step.
-For example with \np{nn\_fsbc}\forcode{ = 3}, the surface module will be called at time-steps 1, 4, 7, etc.
-The date used for the time interpolation is thus redefined to be at the middle of \np{nn\_fsbc} time-step period.
-In the previous example, this leads to: 1h30'00", 4h30'00", 7h30'00", etc. \\ 
+values are not needed at every time-step but at every \np{nn_fsbc}{nn\_fsbc} time-step.
+For example with \np[=3]{nn_fsbc}{nn\_fsbc}, the surface module will be called at time-steps 1, 4, 7, etc.
+The date used for the time interpolation is thus redefined to the middle of \np{nn_fsbc}{nn\_fsbc} time-step period.
+In the previous example, this leads to: 1h30'00", 4h30'00", 7h30'00", etc. \\
 (2) For code readablility and maintenance issues, we don't take into account the NetCDF input file calendar.
 The calendar associated with the forcing field is build according to the information provided by
 user in the record frequency, the open/close frequency and the type of temporal interpolation.
 For example, the first record of a yearly file containing daily data that will be interpolated in time is assumed to
-be start Jan 1st at 12h00'00" and end Dec 31st at 12h00'00". \\
+start Jan 1st at 12h00'00" and end Dec 31st at 12h00'00". \\
 (3) If a time interpolation is requested, the code will pick up the needed data in the previous (next) file when
 interpolating data with the first (last) record of the open/close period.
-For example, if the input file specifications are ''yearly, containing daily data to be interpolated in time'', 
+For example, if the input file specifications are ''yearly, containing daily data to be interpolated in time'',
 the values given by the code between 00h00'00" and 11h59'59" on Jan 1st will be interpolated values between
 Dec 31st 12h00'00" and Jan 1st 12h00'00".
 If the forcing is climatological, Dec and Jan will be keep-up from the same year.
 However, if the forcing is not climatological, at the end of
-the open/close period the code will automatically close the current file and open the next one.
+the open/close period, the code will automatically close the current file and open the next one.
 Note that, if the experiment is starting (ending) at the beginning (end) of
-an open/close period we do accept that the previous (next) file is not existing.
+an open/close period, we do accept that the previous (next) file is not existing.
 In this case, the time interpolation will be performed between two identical values.
 For example, when starting an experiment on Jan 1st of year Y with yearly files and daily data to be interpolated,
 we do accept that the file related to year Y-1 is not existing.
 The value of Jan 1st will be used as the missing one for Dec 31st of year Y-1.
-If the file of year Y-1 exists, the code will read its last record. 
+If the file of year Y-1 exists, the code will read its last record.
 Therefore, this file can contain only one record corresponding to Dec 31st,
 a useful feature for user considering that it is too heavy to manipulate the complete file for year Y-1.
 
-
-% -------------------------------------------------------------------------------------------------------------
-% Interpolation on the Fly
-% -------------------------------------------------------------------------------------------------------------
+%% =================================================================================================
 \subsection{Interpolation on-the-fly}
 \label{subsec:SBC_iof}
@@ -354 +323 @@
 Interpolation on the Fly allows the user to supply input files required for the surface forcing on
 grids other than the model grid.
-To do this he or she must supply, in addition to the source data file, a file of weights to be used to
+To do this, he or she must supply, in addition to the source data file(s), a file of weights to be used to
 interpolate from the data grid to the model grid.
 The original development of this code used the SCRIP package
 (freely available \href{http://climate.lanl.gov/Software/SCRIP}{here} under a copyright agreement).
-In principle, any package can be used to generate the weights, but the variables in
+In principle, any package such as CDO can be used to generate the weights, but the variables in
 the input weights file must have the same names and meanings as assumed by the model.
-Two methods are currently available: bilinear and bicubic interpolation.
+Two methods are currently available: bilinear and bicubic interpolations.
 Prior to the interpolation, providing a land/sea mask file, the user can decide to remove land points from
 the input file and substitute the corresponding values with the average of the 8 neighbouring points in
@@ -366 +335 @@
 Only "sea points" are considered for the averaging.
 The land/sea mask file must be provided in the structure associated with the input variable.
-The netcdf land/sea mask variable name must be 'LSM' it must have the same horizontal and vertical dimensions of
-the associated variable and should be equal to 1 over land and 0 elsewhere.
-The procedure can be recursively applied setting nn\_lsm > 1 in namsbc namelist.
-Note that nn\_lsm=0 forces the code to not apply the procedure even if a file for land/sea mask is supplied.
-
+The netcdf land/sea mask variable name must be 'LSM' and must have the same horizontal and vertical dimensions as
+the associated variables and should be equal to 1 over land and 0 elsewhere.
+The procedure can be recursively applied by setting nn\_lsm > 1 in namsbc namelist.
+Note that nn\_lsm=0 forces the code to not apply the procedure, even if a land/sea mask file is supplied.
+
+%% =================================================================================================
 \subsubsection{Bilinear interpolation}
 \label{subsec:SBC_iof_bilinear}
@@ -376 +346 @@
 The input weights file in this case has two sets of variables:
 src01, src02, src03, src04 and wgt01, wgt02, wgt03, wgt04.
-The "src" variables correspond to the point in the input grid to which the weight "wgt" is to be applied.
+The "src" variables correspond to the point in the input grid to which the weight "wgt" is applied.
 Each src value is an integer corresponding to the index of a point in the input grid when
 written as a one dimensional array.
@@ -392 +362 @@
 and wgt(1) corresponds to variable "wgt01" for example.
 
+%% =================================================================================================
 \subsubsection{Bicubic interpolation}
 \label{subsec:SBC_iof_bicubic}
 
-Again there are two sets of variables: "src" and "wgt".
-But in this case there are 16 of each.
+Again, there are two sets of variables: "src" and "wgt".
+But in this case, there are 16 of each.
 The symbolic algorithm used to calculate values on the model grid is now:
 
@@ -402 +373 @@
   \begin{split}
     f_{m}(i,j) =  f_{m}(i,j) +& \sum_{k=1}^{4} {wgt(k)f(idx(src(k)))}
-    +   \sum_{k=5}^{8} {wgt(k)\left.\frac{\partial f}{\partial i}\right| _{idx(src(k))} }    \\
-    +& \sum_{k=9}^{12} {wgt(k)\left.\frac{\partial f}{\partial j}\right| _{idx(src(k))} }
-    +   \sum_{k=13}^{16} {wgt(k)\left.\frac{\partial ^2 f}{\partial i \partial j}\right| _{idx(src(k))} }
+    +  \sum_{k=5 }^{8 } {wgt(k)\left.\frac{\partial f}{\partial i}\right| _{idx(src(k))} }    \\
+    +& \sum_{k=9 }^{12} {wgt(k)\left.\frac{\partial f}{\partial j}\right| _{idx(src(k))} }
+    +  \sum_{k=13}^{16} {wgt(k)\left.\frac{\partial ^2 f}{\partial i \partial j}\right| _{idx(src(k))} }
   \end{split}
 \]
 The gradients here are taken with respect to the horizontal indices and not distances since
-the spatial dependency has been absorbed into the weights.
-
+the spatial dependency has been included into the weights.
+
+%% =================================================================================================
 \subsubsection{Implementation}
 \label{subsec:SBC_iof_imp}
@@ -421 +393 @@
 inspecting a global attribute stored in the weights input file.
 This attribute must be called "ew\_wrap" and be of integer type.
-If it is negative, the input non-model grid is assumed not to be cyclic.
+If it is negative, the input non-model grid is assumed to be not cyclic.
 If zero or greater, then the value represents the number of columns that overlap.
 $E.g.$ if the input grid has columns at longitudes 0, 1, 2, .... , 359, then ew\_wrap should be set to 0;
 if longitudes are 0.5, 2.5, .... , 358.5, 360.5, 362.5, ew\_wrap should be 2.
 If the model does not find attribute ew\_wrap, then a value of -999 is assumed.
-In this case the \rou{fld\_read} routine defaults ew\_wrap to value 0 and
+In this case, the \rou{fld\_read} routine defaults ew\_wrap to value 0 and
 therefore the grid is assumed to be cyclic with no overlapping columns.
-(In fact this only matters when bicubic interpolation is required.)
+(In fact, this only matters when bicubic interpolation is required.)
 Note that no testing is done to check the validity in the model,
 since there is no way of knowing the name used for the longitude variable,
@@ -445 +417 @@
 or is a copy of one from the first few columns on the opposite side of the grid (cyclical case).
 
+%% =================================================================================================
 \subsubsection{Limitations}
 \label{subsec:SBC_iof_lim}
 
-\begin{enumerate}  
-\item
-  The case where input data grids are not logically rectangular has not been tested.
-\item
-  This code is not guaranteed to produce positive definite answers from positive definite inputs when
+\begin{enumerate}
+\item The case where input data grids are not logically rectangular (irregular grid case) has not been tested.
+\item This code is not guaranteed to produce positive definite answers from positive definite inputs when
   a bicubic interpolation method is used.
-\item
-  The cyclic condition is only applied on left and right columns, and not to top and bottom rows.
-\item
-  The gradients across the ends of a cyclical grid assume that the grid spacing between
+\item The cyclic condition is only applied on left and right columns, and not to top and bottom rows.
+\item The gradients across the ends of a cyclical grid assume that the grid spacing between
   the two columns involved are consistent with the weights used.
-\item
-  Neither interpolation scheme is conservative. (There is a conservative scheme available in SCRIP,
+\item Neither interpolation scheme is conservative. (There is a conservative scheme available in SCRIP,
   but this has not been implemented.)
 \end{enumerate}
 
+%% =================================================================================================
 \subsubsection{Utilities}
 \label{subsec:SBC_iof_util}
@@ -471 +440 @@
 (see the directory NEMOGCM/TOOLS/WEIGHTS).
 
-% -------------------------------------------------------------------------------------------------------------
-% Standalone Surface Boundary Condition Scheme
-% -------------------------------------------------------------------------------------------------------------
-\subsection{Standalone surface boundary condition scheme}
-\label{subsec:SAS_iof}
-
-%---------------------------------------namsbc_ana--------------------------------------------------
-
-\nlst{namsbc_sas}
-%--------------------------------------------------------------------------------------------------------------
-
-In some circumstances it may be useful to avoid calculating the 3D temperature,
-salinity and velocity fields and simply read them in from a previous run or receive them from OASIS.  
+%% =================================================================================================
+\subsection{Standalone surface boundary condition scheme (SAS)}
+\label{subsec:SBC_SAS}
+
+\begin{listing}
+  \nlst{namsbc_sas}
+  \caption{\forcode{&namsbc_sas}}
+  \label{lst:namsbc_sas}
+\end{listing}
+
+In some circumstances, it may be useful to avoid calculating the 3D temperature,
+salinity and velocity fields and simply read them in from a previous run or receive them from OASIS.
 For example:
 
 \begin{itemize}
-\item
-  Multiple runs of the model are required in code development to
+\item Multiple runs of the model are required in code development to
   see the effect of different algorithms in the bulk formulae.
-\item
-  The effect of different parameter sets in the ice model is to be examined.
-\item
-  Development of sea-ice algorithms or parameterizations.
-\item
-  Spinup of the iceberg floats
-\item
-  Ocean/sea-ice simulation with both media running in parallel (\np{ln\_mixcpl}\forcode{ = .true.})
+\item The effect of different parameter sets in the ice model is to be examined.
+\item Development of sea-ice algorithms or parameterizations.
+\item Spinup of the iceberg floats
+\item Ocean/sea-ice simulation with both models running in parallel (\np[=.true.]{ln_mixcpl}{ln\_mixcpl})
 \end{itemize}
 
-The StandAlone Surface scheme provides this utility.
-Its options are defined through the \ngn{namsbc\_sas} namelist variables.
+The Standalone Surface scheme provides this capacity.
+Its options are defined through the \nam{sbc_sas}{sbc\_sas} namelist variables.
 A new copy of the model has to be compiled with a configuration based on ORCA2\_SAS\_LIM.
-However no namelist parameters need be changed from the settings of the previous run (except perhaps nn{\_}date0).
+However, no namelist parameters need be changed from the settings of the previous run (except perhaps nn\_date0).
 In this configuration, a few routines in the standard model are overriden by new versions.
 Routines replaced are:
 
 \begin{itemize}
-\item
-  \mdl{nemogcm}:
-  This routine initialises the rest of the model and repeatedly calls the stp time stepping routine (\mdl{step}).
+\item \mdl{nemogcm}: This routine initialises the rest of the model and repeatedly calls the stp time stepping routine (\mdl{step}).
   Since the ocean state is not calculated all associated initialisations have been removed.
-\item
-  \mdl{step}:
-  The main time stepping routine now only needs to call the sbc routine (and a few utility functions).
-\item
-  \mdl{sbcmod}:
-  This has been cut down and now only calculates surface forcing and the ice model required.
+\item \mdl{step}: The main time stepping routine now only needs to call the sbc routine (and a few utility functions).
+\item \mdl{sbcmod}: This has been cut down and now only calculates surface forcing and the ice model required.
   New surface modules that can function when only the surface level of the ocean state is defined can also be added
-  (\eg icebergs).
-\item
-  \mdl{daymod}:
-  No ocean restarts are read or written (though the ice model restarts are retained),
+  (\eg\ icebergs).
+\item \mdl{daymod}: No ocean restarts are read or written (though the ice model restarts are retained),
   so calls to restart functions have been removed.
   This also means that the calendar cannot be controlled by time in a restart file,
-  so the user must make sure that nn{\_}date0 in the model namelist is correct for his or her purposes.
-\item
-  \mdl{stpctl}:
-  Since there is no free surface solver, references to it have been removed from \rou{stp\_ctl} module.
-\item
-  \mdl{diawri}:
-  All 3D data have been removed from the output.
+  so the user must check that nn\_date0 in the model namelist is correct for his or her purposes.
+\item \mdl{stpctl}: Since there is no free surface solver, references to it have been removed from \rou{stp\_ctl} module.
+\item \mdl{diawri}: All 3D data have been removed from the output.
   The surface temperature, salinity and velocity components (which have been read in) are written along with
   relevant forcing and ice data.
@@ -539 +490 @@
 
 \begin{itemize}
-\item
-  \mdl{sbcsas}:
-  This module initialises the input files needed for reading temperature, salinity and
+\item \mdl{sbcsas}: This module initialises the input files needed for reading temperature, salinity and
   velocity arrays at the surface.
-  These filenames are supplied in namelist namsbc{\_}sas.
-  Unfortunately because of limitations with the \mdl{iom} module,
+  These filenames are supplied in namelist namsbc\_sas.
+  Unfortunately, because of limitations with the \mdl{iom} module,
   the full 3D fields from the mean files have to be read in and interpolated in time,
   before using just the top level.
@@ -550 +499 @@
 \end{itemize}
 
-
-% Missing the description of the 2 following variables:
-%   ln_3d_uve   = .true.    !  specify whether we are supplying a 3D u,v and e3 field
-%   ln_read_frq = .false.    !  specify whether we must read frq or not
-
-
-
-% ================================================================
-% Analytical formulation (sbcana module) 
-% ================================================================
-\section[Analytical formulation (\textit{sbcana.F90})]
-{Analytical formulation (\protect\mdl{sbcana})}
-\label{sec:SBC_ana}
-
-%---------------------------------------namsbc_ana--------------------------------------------------
-%
-%\nlst{namsbc_ana}
-%--------------------------------------------------------------------------------------------------------------
-
-The analytical formulation of the surface boundary condition is the default scheme.
-In this case, all the six fluxes needed by the ocean are assumed to be uniform in space.
-They take constant values given in the namelist \ngn{namsbc{\_}ana} by
-the variables \np{rn\_utau0}, \np{rn\_vtau0}, \np{rn\_qns0}, \np{rn\_qsr0}, and \np{rn\_emp0}
-($\textit{emp}=\textit{emp}_S$).
-The runoff is set to zero.
-In addition, the wind is allowed to reach its nominal value within a given number of time steps (\np{nn\_tau000}).
-
-If a user wants to apply a different analytical forcing,
-the \mdl{sbcana} module can be modified to use another scheme.
-As an example, the \mdl{sbc\_ana\_gyre} routine provides the analytical forcing for the GYRE configuration
-(see GYRE configuration manual, in preparation).
-
-
-% ================================================================
-% Flux formulation 
-% ================================================================
-\section[Flux formulation (\textit{sbcflx.F90})]
-{Flux formulation (\protect\mdl{sbcflx})}
+The user can also choose in the \nam{sbc_sas}{sbc\_sas} namelist to read the mean (nn\_fsbc time-step) fraction of solar net radiation absorbed in the 1st T level using
+ (\np[=.true.]{ln_flx}{ln\_flx}) and to provide 3D oceanic velocities instead of 2D ones (\np{ln_flx}{ln\_flx}\forcode{=.true.}). In that last case, only the 1st level will be read in.
+
+%% =================================================================================================
+\section[Flux formulation (\textit{sbcflx.F90})]{Flux formulation (\protect\mdl{sbcflx})}
 \label{sec:SBC_flx}
-%------------------------------------------namsbc_flx----------------------------------------------------
-
-\nlst{namsbc_flx} 
-%-------------------------------------------------------------------------------------------------------------
-
-In the flux formulation (\np{ln\_flx}\forcode{ = .true.}),
+
+% Laurent: DO NOT mix up ``bulk formulae'' (the classic equation) and the ``bulk
+% parameterization'' (i.e NCAR, COARE, ECMWF...)
+
+\begin{listing}
+  \nlst{namsbc_flx}
+  \caption{\forcode{&namsbc_flx}}
+  \label{lst:namsbc_flx}
+\end{listing}
+
+In the flux formulation (\np[=.true.]{ln_flx}{ln\_flx}),
 the surface boundary condition fields are directly read from input files.
-The user has to define in the namelist \ngn{namsbc{\_}flx} the name of the file,
+The user has to define in the namelist \nam{sbc_flx}{sbc\_flx} the name of the file,
 the name of the variable read in the file, the time frequency at which it is given (in hours),
 and a logical setting whether a time interpolation to the model time step is required for this field.
@@ -605 +526 @@
 
 
-% ================================================================
-% Bulk formulation
-% ================================================================
-\section[Bulk formulation {(\textit{sbcblk\{\_core,\_clio\}.F90})}]
-{Bulk formulation {(\protect\mdl{sbcblk\_core}, \protect\mdl{sbcblk\_clio})}}
+
+
+
+
+
+%% =================================================================================================
+\pagebreak
+\newpage
+\section[Bulk formulation (\textit{sbcblk.F90})]{Bulk formulation (\protect\mdl{sbcblk})}
 \label{sec:SBC_blk}
 
-In the bulk formulation, the surface boundary condition fields are computed using bulk formulae and atmospheric fields and ocean (and ice) variables.
-
-The atmospheric fields used depend on the bulk formulae used.
-Two bulk formulations are available:
-the CORE and the CLIO bulk formulea.
-The choice is made by setting to true one of the following namelist variable:
-\np{ln\_core} or \np{ln\_clio}.
-
-Note:
-in forced mode, when a sea-ice model is used, a bulk formulation (CLIO or CORE) have to be used.
-Therefore the two bulk (CLIO and CORE) formulea include the computation of the fluxes over
-both an ocean and an ice surface. 
-
-% -------------------------------------------------------------------------------------------------------------
-%        CORE Bulk formulea
-% -------------------------------------------------------------------------------------------------------------
-\subsection[CORE formulea (\textit{sbcblk\_core.F90}, \forcode{ln_core = .true.})]
-{CORE formulea (\protect\mdl{sbcblk\_core}, \protect\np{ln\_core}\forcode{ = .true.})}
-\label{subsec:SBC_blk_core}
-%------------------------------------------namsbc_core----------------------------------------------------
-%
-%\nlst{namsbc_core}
-%-------------------------------------------------------------------------------------------------------------
-
-The CORE bulk formulae have been developed by \citet{large.yeager_rpt04}.
-They have been designed to handle the CORE forcing, a mixture of NCEP reanalysis and satellite data.
-They use an inertial dissipative method to compute the turbulent transfer coefficients
-(momentum, sensible heat and evaporation) from the 10 metre wind speed, air temperature and specific humidity.
-This \citet{large.yeager_rpt04} dataset is available through
-the \href{http://nomads.gfdl.noaa.gov/nomads/forms/mom4/CORE.html}{GFDL web site}.
-
-Note that substituting ERA40 to NCEP reanalysis fields does not require changes in the bulk formulea themself.
-This is the so-called DRAKKAR Forcing Set (DFS) \citep{brodeau.barnier.ea_OM10}.
-
-Options are defined through the  \ngn{namsbc\_core} namelist variables.
-The required 8 input fields are:
-
-%--------------------------------------------------TABLE--------------------------------------------------
+% L. Brodeau, December 2019...
+
+\begin{listing}
+  \nlst{namsbc_blk}
+  \caption{\forcode{&namsbc_blk}}
+  \label{lst:namsbc_blk}
+\end{listing}
+
+If the bulk formulation is selected (\np[=.true.]{ln_blk}{ln\_blk}), the air-sea
+fluxes associated with surface boundary conditions are estimated by means of the
+traditional \emph{bulk formulae}. As input, bulk formulae rely on a prescribed
+near-surface atmosphere state (typically extracted from a weather reanalysis)
+and the prognostic sea (-ice) surface state averaged over \np{nn_fsbc}{nn\_fsbc}
+time-step(s).
+
+% Turbulent air-sea fluxes are computed using the sea surface properties and
+% atmospheric SSVs at height $z$ above the sea surface, with the traditional
+% aerodynamic bulk formulae:
+
+Note: all the NEMO Fortran routines involved in the present section have been
+ initially developed (and are still developped in parallel) in
+ the \href{https://brodeau.github.io/aerobulk/}{\texttt{AeroBulk}} open-source project
+\citep{brodeau.barnier.ea_JPO17}.
+
+%%% Bulk formulae are this:
+\subsection{Bulk formulae}\label{subsec:SBC_blkform}
+%
+In NEMO, the set of equations that relate each component of the surface fluxes
+to the near-surface atmosphere and sea surface states writes
+%
+\begin{subequations}\label{eq_bulk}
+  \begin{eqnarray}
+    \mathbf{\tau} &=& \rho~ C_D ~ \mathbf{U}_z  ~ U_B \label{eq_b_t} \\
+    Q_H           &=& \rho~C_H~C_P~\big[ \theta_z - T_s \big] ~ U_B \label{eq_b_qh} \\
+    E             &=& \rho~C_E    ~\big[    q_s   - q_z \big] ~ U_B \label{eq_b_e}  \\
+    Q_L           &=& -L_v \, E  \label{eq_b_qe} \\
+    %
+    Q_{sr}        &=& (1 - a) Q_{sw\downarrow} \\
+    Q_{ir}        &=& \delta (Q_{lw\downarrow} -\sigma T_s^4)
+  \end{eqnarray}
+\end{subequations}
+%
+with
+   \[ \theta_z \simeq T_z+\gamma z \]
+   \[  q_s \simeq 0.98\,q_{sat}(T_s,p_a ) \]
+%
+from which, the the non-solar heat flux is \[ Q_{ns} = Q_L + Q_H + Q_{ir} \]
+%
+where $\mathbf{\tau}$ is the wind stress vector, $Q_H$ the sensible heat flux,
+$E$ the evaporation, $Q_L$ the latent heat flux, and $Q_{ir}$ the net longwave
+flux.
+%
+$Q_{sw\downarrow}$ and $Q_{lw\downarrow}$ are the surface downwelling shortwave
+and longwave radiative fluxes, respectively.
+%
+Note: a positive sign of $\mathbf{\tau}$, the various fluxes of heat implies a
+gain of the relevant quantity for the ocean, while a positive $E$ implies a
+freshwater loss for the ocean.
+%
+$\rho$ is the density of air. $C_D$, $C_H$ and $C_E$ are the bulk transfer
+coefficients for momentum, sensible heat, and moisture, respectively (hereafter
+referred to as BTCs).
+%
+$C_P$ is the heat capacity of moist air, and $L_v$ is the latent heat of
+vaporization of water.
+%
+$\theta_z$, $T_z$ and $q_z$ are the potential temperature, absolute temperature,
+and specific humidity of air at height $z$ above the sea surface,
+respectively. $\gamma z$ is a temperature correction term which accounts for the
+adiabatic lapse rate and approximates the potential temperature at height
+$z$ \citep{josey.gulev.ea_2013}.
+%
+$\mathbf{U}_z$ is the wind speed vector at height $z$ above the sea surface
+(possibly referenced to the surface current $\mathbf{u_0}$,
+section \ref{s_res1}.\ref{ss_current}).
+%
+The bulk scalar wind speed, namely $U_B$, is the scalar wind speed,
+$|\mathbf{U}_z|$, with the potential inclusion of a gustiness contribution .
+%
+$a$ and $\delta$ are the albedo and emissivity of the sea surface, respectively.\\
+%
+%$p_a$ is the mean sea-level pressure (SLP).
+%
+$T_s$ is the sea surface temperature. $q_s$ is the saturation specific humidity
+of air at temperature $T_s$ and includes a 2\% reduction to account for the
+presence of salt in seawater \citep{sverdrup.johnson.ea_1942,kraus.businger_QJRMS96}.
+Depending on the bulk parametrization used, $T_s$ can either be the temperature
+at the air-sea interface (skin temperature, hereafter SSST) or at typically a
+few tens of centimeters below the surface (bulk sea surface temperature,
+hereafter SST).
+%
+The SSST differs from the SST due to the contributions of two effects of
+opposite sign, the \emph{cool skin} and \emph{warm layer} (hereafter CS and WL,
+respectively, see section\,\ref{subsec:SBC_skin}).
+%
+Technically, when the ECMWF or COARE* bulk parametrizations are selected
+(\np[=.true.]{ln_ECMWF}{ln\_ECMWF} or \np[=.true.]{ln_COARE*}{ln\_COARE\*}),
+$T_s$ is the SSST, as opposed to the NCAR bulk parametrization
+(\np[=.true.]{ln_NCAR}{ln\_NCAR}) for which $T_s$ is the bulk SST (\ie~temperature
+at first T-point level).
+
+
+For more details on all these aspects the reader is invited to refer
+to \citet{brodeau.barnier.ea_JPO17}.
+
+
+
+\subsection{Bulk parametrizations}\label{subsec:SBC_blk_ocean}
+%%%\label{subsec:SBC_param}
+
+Accuracy of the estimate of surface turbulent fluxes by means of bulk formulae
+strongly relies on that of the bulk transfer coefficients: $C_D$, $C_H$ and
+$C_E$. They are estimated with what we refer to as a \emph{bulk
+parametrization} algorithm. When relevant, these algorithms also perform the
+height adjustment of humidity and temperature to the wind reference measurement
+height (from \np{rn_zqt}{rn\_zqt} to \np{rn_zu}{rn\_zu}).
+
+
+
+For the open ocean, four bulk parametrization algorithms are available:
+\begin{itemize}
+\item NCAR, formerly known as CORE, \citep{large.yeager_rpt04,large.yeager_CD09}
+\item COARE 3.0 \citep{fairall.bradley.ea_JC03}
+\item COARE 3.6 \citep{edson.jampana.ea_JPO13}
+\item ECMWF (IFS documentation, cy45)
+\end{itemize}
+
+
+Differences between versions 3.0 and 3.6 of the COARE algorithm mainly ... wind
+stress BLABLA \citep{edson.jampana.ea_JPO13,brodeau.barnier.ea_JPO17}.
+Therefore it is recommanded to use version 3.6 of the COARE algorithms rather
+than version 3.
+
+
+
+
+\subsection{Cool-skin and warm-layer parametrizations}\label{subsec:SBC_skin}
+%\subsection[Cool-skin and warm-layer parameterizations
+%(\forcode{ln_skin_cs} \& \forcode{ln_skin_wl})]{Cool-skin and warm-layer parameterizations (\protect\np{ln_skin_cs}{ln\_skin\_cs} \& \np{ln_skin_wl}{ln\_skin\_wl})}
+%\label{subsec:SBC_skin}
+%
+As opposed to the NCAR bulk parametrization, more advanced bulk
+parametrizations such as COARE3.x and ECMWF are meant to be used with the skin
+temperature $T_s$ rather than the bulk SST (which, in NEMO is the temperature at
+the first T-point level, see section\,\ref{subsec:SBC_blkform}).
+%
+As such, the relevant cool-skin and warm-layer parametrization must be
+activated through \np[=T]{ln_skin_cs}{ln\_skin\_cs}
+and \np[=T]{ln_skin_wl}{ln\_skin\_wl} to use COARE3.x or ECMWF in a consistent
+way.
+
+\texttt{\#LB: ADD BLBLA ABOUT THE TWO CS/WL PARAMETRIZATIONS (ECMWF and COARE) !!!}
+
+For the cool-skin scheme parametrization COARE and ECMWF algorithms share the same
+basis: \citet{fairall.bradley.ea_JGR96}. With some minor updates based
+on \citet{zeng.beljaars_GRL05} for ECMWF, and \citet{fairall.ea_19} for COARE
+3.6.
+
+For the warm-layer scheme, ECMWF is based on \citet{zeng.beljaars_GRL05} with a
+recent update from \citet{takaya.bidlot.ea_JGR10} (consideration of the
+turbulence input from Langmuir circulation).
+
+Importantly, COARE warm-layer scheme \citep{fairall.ea_19} includes a prognostic
+equation for the thickness of the warm-layer, while it is considered as constant
+in the ECWMF algorithm.
+
+
+\subsection{Appropriate use of each bulk parametrization}
+
+\subsubsection{NCAR}
+
+NCAR bulk parametrizations (formerly know as CORE) is meant to be used with the
+CORE II atmospheric forcing \citep{large.yeager_CD09}. Hence the following
+namelist parameters must be set:
+%
+\begin{verbatim}
+  ...
+  ln_NCAR    = .true.
+  ...
+  rn_zqt     = 10.     ! Air temperature & humidity reference height (m)
+  rn_zu      = 10.     ! Wind vector reference height (m)
+  ...
+  ln_skin_cs = .false. ! use the cool-skin parameterization
+  ln_skin_wl = .false. ! use the warm-layer parameterization
+  ...
+  ln_humi_sph = .true. ! humidity "sn_humi" is specific humidity  [kg/kg]
+\end{verbatim}
+
+
+\subsubsection{ECMWF}
+%
+With a DFS* or any ECMWF-based type of atmospheric forcing, we strongly
+recommend to use the ECMWF bulk parametrizations with the cool-skin and
+warm-layer parametrizations turned on. In ECMWF reanalyzes, since air
+temperature and humidity are provided at the 2\,m height, and given that the
+humidity is provided as the dew-point temperature, the namelist must be tuned as
+follows:
+%
+\begin{verbatim}
+  ...
+  ln_ECMWF   = .true.
+  ...     
+  rn_zqt     =  2.     ! Air temperature & humidity reference height (m)
+  rn_zu      = 10.     ! Wind vector reference height (m)
+  ...
+  ln_skin_cs = .true. ! use the cool-skin parameterization
+  ln_skin_wl = .true. ! use the warm-layer parameterization
+  ...
+  ln_humi_dpt = .true. !  humidity "sn_humi" is dew-point temperature [K]
+  ...
+\end{verbatim}
+%
+Note: when \np{ln_ECMWF}{ln\_ECMWF} is selected, the selection
+of \np{ln_skin_cs}{ln\_skin\_cs} and \np{ln_skin_wl}{ln\_skin\_wl} implicitly
+triggers the use of the ECMWF cool-skin and warm-layer parametrizations,
+respectively (found in \textit{sbcblk\_skin\_ecmwf.F90}).
+
+
+\subsubsection{COARE 3.x}
+%
+Since the ECMWF parametrization is largely based on the COARE* parametrization,
+the two algorithms are very similar in terms of structure and closure approach
+(see \citet{brodeau.barnier.ea_JPO17} for the differences). As such, the
+namelist tuning for COARE 3.x is identical to that of ECMWF:
+%
+\begin{verbatim}
+  ...
+  ln_COARE3p6 = .true.
+  ...     
+  ln_skin_cs = .true. ! use the cool-skin parameterization
+  ln_skin_wl = .true. ! use the warm-layer parameterization
+  ...
+\end{verbatim}
+
+Note: when \np[=T]{ln_COARE3p0}{ln\_COARE3p0} is selected, the selection
+of \np{ln_skin_cs}{ln\_skin\_cs} and \np{ln_skin_wl}{ln\_skin\_wl} implicitly
+triggers the use of the COARE cool-skin and warm-layer parametrizations,
+respectively (found in \textit{sbcblk\_skin\_coare.F90}).
+
+
+~
+
+
+
+% In a typical bulk algorithm, the BTCs under neutral stability conditions are
+% defined using \emph{in-situ} flux measurements while their dependence on the
+% stability is accounted through the \emph{Monin-Obukhov Similarity Theory} and
+% the \emph{flux-profile} relationships \citep[\eg{}][]{Paulson_1970}. BTCs are
+% functions of the wind speed and the near-surface stability of the atmospheric
+% surface layer (hereafter ASL), and hence, depend on $U_B$, $T_s$, $T_z$, $q_s$
+% and $q_z$.
+
+
+
+\subsection{Prescribed near-surface atmospheric state}
+
+The atmospheric fields used depend on the bulk formulae used.  In forced mode,
+when a sea-ice model is used, a specific bulk formulation is used.  Therefore,
+different bulk formulae are used for the turbulent fluxes computation over the
+ocean and over sea-ice surface.
+%
+
+%The choice is made by setting to true one of the following namelist
+%variable: \np{ln_NCAR}{ln\_NCAR}, \np{ln_COARE_3p0}{ln\_COARE\_3p0}, \np{ln_COARE_3p6}{ln\_COARE\_3p6}
+%and \np{ln_ECMWF}{ln\_ECMWF}. 
+
+Common options are defined through the \nam{sbc_blk}{sbc\_blk} namelist variables.
+The required 9 input fields are:
+
 \begin{table}[htbp]
-  \label{tab:CORE}
-  \begin{center}
-    \begin{tabular}{|l|c|c|c|}
-      \hline
-      Variable desciption              & Model variable  & Units   & point \\    \hline
-      i-component of the 10m air velocity & utau      & $m.s^{-1}$         & T  \\  \hline
-      j-component of the 10m air velocity & vtau      & $m.s^{-1}$         & T  \\  \hline
-      10m air temperature              & tair      & \r{}$K$            & T   \\ \hline
-      Specific humidity             & humi      & \%              & T \\      \hline
-      Incoming long wave radiation     & qlw    & $W.m^{-2}$         & T \\      \hline
-      Incoming short wave radiation    & qsr    & $W.m^{-2}$         & T \\      \hline
-      Total precipitation (liquid + solid)   & precip & $Kg.m^{-2}.s^{-1}$ & T \\   \hline
-      Solid precipitation              & snow      & $Kg.m^{-2}.s^{-1}$ & T \\   \hline
+  \centering
+  \begin{tabular}{|l|c|c|c|}
+    \hline
+    Variable description                 & Model variable & Units              & point \\
+    \hline
+    i-component of the 10m air velocity  & wndi           & $m.s^{-1}$         & T     \\
+    \hline
+    j-component of the 10m air velocity  & wndj           & $m.s^{-1}$         & T     \\
+    \hline
+    10m air temperature                  & tair           & $K$               & T     \\
+    \hline
+    Specific humidity                    & humi           & $-$               & T     \\
+    Relative humidity                    & ~              & $\%$              & T     \\
+    Dew-point temperature                & ~              & $K$               & T     \\    
+    \hline
+    Downwelling longwave radiation       & qlw            & $W.m^{-2}$         & T     \\
+    \hline
+    Downwelling shortwave radiation      & qsr            & $W.m^{-2}$         & T     \\
+    \hline
+    Total precipitation (liquid + solid) & precip         & $Kg.m^{-2}.s^{-1}$ & T     \\
+    \hline
+    Solid precipitation                  & snow           & $Kg.m^{-2}.s^{-1}$ & T     \\
+    \hline
+    Mean sea-level pressure              & slp            & $hPa$              & T     \\
+    \hline
     \end{tabular}
-  \end{center}
+  \label{tab:SBC_BULK}
 \end{table}
-%--------------------------------------------------------------------------------------------------------------
 
 Note that the air velocity is provided at a tracer ocean point, not at a velocity ocean point ($u$- and $v$-points).
@@ -673 +840 @@
 the ocean grid size is the same or larger than the one of the input atmospheric fields.
 
-The \np{sn\_wndi}, \np{sn\_wndj}, \np{sn\_qsr}, \np{sn\_qlw}, \np{sn\_tair}, \np{sn\_humi}, \np{sn\_prec},
-\np{sn\_snow}, \np{sn\_tdif} parameters describe the fields and the way they have to be used
-(spatial and temporal interpolations). 
-
-\np{cn\_dir} is the directory of location of bulk files
-\np{ln\_taudif} is the flag to specify if we use Hight Frequency (HF) tau information (.true.) or not (.false.)
-\np{rn\_zqt}: is the height of humidity and temperature measurements (m)
-\np{rn\_zu}: is the height of wind measurements (m)
-
-Three multiplicative factors are availables: 
-\np{rn\_pfac} and \np{rn\_efac} allows to adjust (if necessary) the global freshwater budget by
+The \np{sn_wndi}{sn\_wndi}, \np{sn_wndj}{sn\_wndj}, \np{sn_qsr}{sn\_qsr}, \np{sn_qlw}{sn\_qlw}, \np{sn_tair}{sn\_tair}, \np{sn_humi}{sn\_humi}, \np{sn_prec}{sn\_prec},
+\np{sn_snow}{sn\_snow}, \np{sn_tdif}{sn\_tdif} parameters describe the fields and the way they have to be used
+(spatial and temporal interpolations).
+
+\np{cn_dir}{cn\_dir} is the directory of location of bulk files
+\np{ln_taudif}{ln\_taudif} is the flag to specify if we use Hight Frequency (HF) tau information (.true.) or not (.false.)
+\np{rn_zqt}{rn\_zqt}: is the height of humidity and temperature measurements (m)
+\np{rn_zu}{rn\_zu}: is the height of wind measurements (m)
+
+Three multiplicative factors are available:
+\np{rn_pfac}{rn\_pfac} and \np{rn_efac}{rn\_efac} allow to adjust (if necessary) the global freshwater budget by
 increasing/reducing the precipitations (total and snow) and or evaporation, respectively.
-The third one,\np{rn\_vfac}, control to which extend the ice/ocean velocities are taken into account in
+The third one,\np{rn_vfac}{rn\_vfac}, control to which extend the ice/ocean velocities are taken into account in
 the calculation of surface wind stress.
-Its range should be between zero and one, and it is recommended to set it to 0.
-
-% -------------------------------------------------------------------------------------------------------------
-%        CLIO Bulk formulea
-% -------------------------------------------------------------------------------------------------------------
-\subsection[CLIO formulea (\textit{sbcblk\_clio.F90}, \forcode{ln_clio = .true.})]
-{CLIO formulea (\protect\mdl{sbcblk\_clio}, \protect\np{ln\_clio}\forcode{ = .true.})}
-\label{subsec:SBC_blk_clio}
-%------------------------------------------namsbc_clio----------------------------------------------------
-%
-%\nlst{namsbc_clio}
-%-------------------------------------------------------------------------------------------------------------
-
-The CLIO bulk formulae were developed several years ago for the Louvain-la-neuve coupled ice-ocean model
-(CLIO, \cite{goosse.deleersnijder.ea_JGR99}). 
-They are simpler bulk formulae.
-They assume the stress to be known and compute the radiative fluxes from a climatological cloud cover. 
-
-Options are defined through the  \ngn{namsbc\_clio} namelist variables.
-The required 7 input fields are:
-
-%--------------------------------------------------TABLE--------------------------------------------------
-\begin{table}[htbp]
-  \label{tab:CLIO}
-  \begin{center}
-    \begin{tabular}{|l|l|l|l|}
-      \hline
-      Variable desciption           & Model variable  & Units           & point \\  \hline
-      i-component of the ocean stress     & utau         & $N.m^{-2}$         & U \\   \hline
-      j-component of the ocean stress     & vtau         & $N.m^{-2}$         & V \\   \hline
-      Wind speed module             & vatm         & $m.s^{-1}$         & T \\   \hline
-      10m air temperature              & tair         & \r{}$K$            & T \\   \hline
-      Specific humidity                & humi         & \%              & T \\   \hline
-      Cloud cover                   &           & \%              & T \\   \hline
-      Total precipitation (liquid + solid)   & precip    & $Kg.m^{-2}.s^{-1}$ & T \\   \hline
-      Solid precipitation              & snow         & $Kg.m^{-2}.s^{-1}$ & T \\   \hline
-    \end{tabular}
-  \end{center}
-\end{table}
-%--------------------------------------------------------------------------------------------------------------
-
-As for the flux formulation, information about the input data required by the model is provided in
-the namsbc\_blk\_core or namsbc\_blk\_clio namelist (see \autoref{subsec:SBC_fldread}). 
-
-% ================================================================
-% Coupled formulation
-% ================================================================
-\section[Coupled formulation (\textit{sbccpl.F90})]
-{Coupled formulation (\protect\mdl{sbccpl})}
+Its range must be between zero and one, and it is recommended to set it to 0 at low-resolution (ORCA2 configuration).
+
+As for the flux parameterization, information about the input data required by the model is provided in
+the namsbc\_blk namelist (see \autoref{subsec:SBC_fldread}).
+
+
+\subsubsection{Air humidity}
+
+Air humidity can be provided as three different parameters: specific humidity
+[kg/kg], relative humidity [\%], or dew-point temperature [K] (LINK to namelist
+parameters)...
+
+
+~\\
+
+
+
+
+
+
+
+
+
+
+%% =================================================================================================
+%\subsection[Ocean-Atmosphere Bulk formulae (\textit{sbcblk\_algo\_coare3p0.F90, sbcblk\_algo\_coare3p6.F90, %sbcblk\_algo\_ecmwf.F90, sbcblk\_algo\_ncar.F90})]{Ocean-Atmosphere Bulk formulae (\mdl{sbcblk\_algo\_coare3p0}, %\mdl{sbcblk\_algo\_coare3p6}, \mdl{sbcblk\_algo\_ecmwf}, \mdl{sbcblk\_algo\_ncar})}
+%\label{subsec:SBC_blk_ocean}
+
+%Four different bulk algorithms are available to compute surface turbulent momentum and heat fluxes over the ocean.
+%COARE 3.0, COARE 3.6 and ECMWF schemes mainly differ by their roughness lenghts computation and consequently
+%their neutral transfer coefficients relationships with neutral wind.
+%\begin{itemize}
+%\item NCAR (\np[=.true.]{ln_NCAR}{ln\_NCAR}): The NCAR bulk formulae have been developed by \citet{large.yeager_rpt04}.
+%  They have been designed to handle the NCAR forcing, a mixture of NCEP reanalysis and satellite data.
+%  They use an inertial dissipative method to compute the turbulent transfer coefficients
+%  (momentum, sensible heat and evaporation) from the 10m wind speed, air temperature and specific humidity.
+%  This \citet{large.yeager_rpt04} dataset is available through
+%  the \href{http://nomads.gfdl.noaa.gov/nomads/forms/mom4/NCAR.html}{GFDL web site}.
+%  Note that substituting ERA40 to NCEP reanalysis fields does not require changes in the bulk formulea themself.
+%  This is the so-called DRAKKAR Forcing Set (DFS) \citep{brodeau.barnier.ea_OM10}.
+%\item COARE 3.0 (\np[=.true.]{ln_COARE_3p0}{ln\_COARE\_3p0}): See \citet{fairall.bradley.ea_JC03} for more details
+%\item COARE 3.6 (\np[=.true.]{ln_COARE_3p6}{ln\_COARE\_3p6}): See \citet{edson.jampana.ea_JPO13} for more details
+%\item ECMWF (\np[=.true.]{ln_ECMWF}{ln\_ECMWF}): Based on \href{https://www.ecmwf.int/node/9204}{IFS (Cy40r1)} %implementation and documentation.
+%  Surface roughness lengths needed for the Obukhov length are computed
+%  following \citet{beljaars_QJRMS95}.
+%\end{itemize}
+
+%% =================================================================================================
+\subsection{Ice-Atmosphere Bulk formulae}
+\label{subsec:SBC_blk_ice}
+
+
+\texttt{\#out\_of\_place:}
+ For sea-ice, three possibilities can be selected:
+a constant transfer coefficient (1.4e-3; default
+value), \citet{lupkes.gryanik.ea_JGR12} (\np{ln_Cd_L12}{ln\_Cd\_L12}),
+and \citet{lupkes.gryanik_JGR15} (\np{ln_Cd_L15}{ln\_Cd\_L15}) parameterizations
+\texttt{\#out\_of\_place.}
+
+
+
+
+Surface turbulent fluxes between sea-ice and the atmosphere can be computed in three different ways:
+
+\begin{itemize}
+\item Constant value (\np[ Cd_ice=1.4e-3 ]{constant value}{constant\ value}):
+  default constant value used for momentum and heat neutral transfer coefficients
+\item \citet{lupkes.gryanik.ea_JGR12} (\np[=.true.]{ln_Cd_L12}{ln\_Cd\_L12}):
+  This scheme adds a dependency on edges at leads, melt ponds and flows
+  of the constant neutral air-ice drag. After some approximations,
+  this can be resumed to a dependency on ice concentration (A).
+  This drag coefficient has a parabolic shape (as a function of ice concentration)
+  starting at 1.5e-3 for A=0, reaching 1.97e-3 for A=0.5 and going down 1.4e-3 for A=1.
+  It is theoretically applicable to all ice conditions (not only MIZ).
+\item \citet{lupkes.gryanik_JGR15} (\np[=.true.]{ln_Cd_L15}{ln\_Cd\_L15}):
+  Alternative turbulent transfer coefficients formulation between sea-ice
+  and atmosphere with distinct momentum and heat coefficients depending
+  on sea-ice concentration and atmospheric stability (no melt-ponds effect for now).
+  The parameterization is adapted from ECHAM6 atmospheric model.
+  Compared to Lupkes2012 scheme, it considers specific skin and form drags
+  to compute neutral transfer coefficients for both heat and momentum fluxes.
+  Atmospheric stability effect on transfer coefficient is also taken into account.
+\end{itemize}
+
+%% =================================================================================================
+\section[Coupled formulation (\textit{sbccpl.F90})]{Coupled formulation (\protect\mdl{sbccpl})}
 \label{sec:SBC_cpl}
-%------------------------------------------namsbc_cpl----------------------------------------------------
-
-\nlst{namsbc_cpl} 
-%-------------------------------------------------------------------------------------------------------------
+
+\begin{listing}
+  \nlst{namsbc_cpl}
+  \caption{\forcode{&namsbc_cpl}}
+  \label{lst:namsbc_cpl}
+\end{listing}
 
 In the coupled formulation of the surface boundary condition,
-the fluxes are provided by the OASIS coupler at a frequency which is defined in the OASIS coupler,
+the fluxes are provided by the OASIS coupler at a frequency which is defined in the OASIS coupler namelist,
 while sea and ice surface temperature, ocean and ice albedo, and ocean currents are sent to
 the atmospheric component.
 
 A generalised coupled interface has been developed.
-It is currently interfaced with OASIS-3-MCT (\key{oasis3}).
-It has been successfully used to interface \NEMO to most of the European atmospheric GCM
+It is currently interfaced with OASIS-3-MCT versions 1 to 4 (\key{oasis3}).
+An additional specific CPP key (\key{oa3mct\_v1v2}) is needed for OASIS-3-MCT versions 1 and 2.
+It has been successfully used to interface \NEMO\ to most of the European atmospheric GCM
 (ARPEGE, ECHAM, ECMWF, HadAM, HadGAM, LMDz), as well as to \href{http://wrf-model.org/}{WRF}
 (Weather Research and Forecasting Model).
 
-Note that in addition to the setting of \np{ln\_cpl} to true, the \key{coupled} have to be defined.
-The CPP key is mainly used in sea-ice to ensure that the atmospheric fluxes are actually received by
-the ice-ocean system (no calculation of ice sublimation in coupled mode).
-When PISCES biogeochemical model (\key{top} and \key{pisces}) is also used in the coupled system, 
-the whole carbon cycle is computed by defining \key{cpl\_carbon\_cycle}.
+When PISCES biogeochemical model (\key{top}) is also used in the coupled system,
+the whole carbon cycle is computed.
 In this case, CO$_2$ fluxes will be exchanged between the atmosphere and the ice-ocean system
-(and need to be activated in \ngn{namsbc{\_}cpl} ).
+(and need to be activated in \nam{sbc_cpl}{sbc\_cpl} ).
 
 The namelist above allows control of various aspects of the coupling fields (particularly for vectors) and
 now allows for any coupling fields to have multiple sea ice categories (as required by LIM3 and CICE).
-When indicating a multi-category coupling field in namsbc{\_}cpl the number of categories will be determined by
+When indicating a multi-category coupling field in \nam{sbc_cpl}{sbc\_cpl}, the number of categories will be determined by
 the number used in the sea ice model.
-In some limited cases it may be possible to specify single category coupling fields even when
+In some limited cases, it may be possible to specify single category coupling fields even when
 the sea ice model is running with multiple categories -
-in this case the user should examine the code to be sure the assumptions made are satisfactory.
-In cases where this is definitely not possible the model should abort with an error message.
-The new code has been tested using ECHAM with LIM2, and HadGAM3 with CICE but
-although it will compile with \key{lim3} additional minor code changes may be required to run using LIM3.
-
-
-% ================================================================
-%        Atmospheric pressure
-% ================================================================
-\section[Atmospheric pressure (\textit{sbcapr.F90})]
-{Atmospheric pressure (\protect\mdl{sbcapr})}
+in this case, the user should examine the code to be sure the assumptions made are satisfactory.
+In cases where this is definitely not possible, the model should abort with an error message.
+
+%% =================================================================================================
+\section[Atmospheric pressure (\textit{sbcapr.F90})]{Atmospheric pressure (\protect\mdl{sbcapr})}
 \label{sec:SBC_apr}
-%------------------------------------------namsbc_apr----------------------------------------------------
-
-\nlst{namsbc_apr} 
-%-------------------------------------------------------------------------------------------------------------
+
+\begin{listing}
+  \nlst{namsbc_apr}
+  \caption{\forcode{&namsbc_apr}}
+  \label{lst:namsbc_apr}
+\end{listing}
 
 The optional atmospheric pressure can be used to force ocean and ice dynamics
-(\np{ln\_apr\_dyn}\forcode{ = .true.}, \textit{\ngn{namsbc}} namelist).
-The input atmospheric forcing defined via \np{sn\_apr} structure (\textit{namsbc\_apr} namelist)
+(\np[=.true.]{ln_apr_dyn}{ln\_apr\_dyn}, \nam{sbc}{sbc} namelist).
+The input atmospheric forcing defined via \np{sn_apr}{sn\_apr} structure (\nam{sbc_apr}{sbc\_apr} namelist)
 can be interpolated in time to the model time step, and even in space when the interpolation on-the-fly is used.
 When used to force the dynamics, the atmospheric pressure is further transformed into
@@ -795 +995 @@
 \]
 where $P_{atm}$ is the atmospheric pressure and $P_o$ a reference atmospheric pressure.
-A value of $101,000~N/m^2$ is used unless \np{ln\_ref\_apr} is set to true.
-In this case $P_o$ is set to the value of $P_{atm}$ averaged over the ocean domain,
-\ie the mean value of $\eta_{ib}$ is kept to zero at all time step.
+A value of $101,000~N/m^2$ is used unless \np{ln_ref_apr}{ln\_ref\_apr} is set to true.
+In this case, $P_o$ is set to the value of $P_{atm}$ averaged over the ocean domain,
+\ie\ the mean value of $\eta_{ib}$ is kept to zero at all time steps.
 
 The gradient of $\eta_{ib}$ is added to the RHS of the ocean momentum equation (see \mdl{dynspg} for the ocean).
 For sea-ice, the sea surface height, $\eta_m$, which is provided to the sea ice model is set to $\eta - \eta_{ib}$
 (see \mdl{sbcssr} module).
-$\eta_{ib}$ can be set in the output.
+$\eta_{ib}$ can be written in the output.
 This can simplify altimetry data and model comparison as
 inverse barometer sea surface height is usually removed from these date prior to their distribution.
 
 When using time-splitting and BDY package for open boundaries conditions,
-the equivalent inverse barometer sea surface height $\eta_{ib}$ can be added to BDY ssh data: 
-\np{ln\_apr\_obc}  might be set to true.
-
-% ================================================================
-%        Surface Tides Forcing
-% ================================================================
-\section[Surface tides (\textit{sbctide.F90})]
-{Surface tides (\protect\mdl{sbctide})}
+the equivalent inverse barometer sea surface height $\eta_{ib}$ can be added to BDY ssh data:
+\np{ln_apr_obc}{ln\_apr\_obc}  might be set to true.
+
+%% =================================================================================================
+\section[Surface tides (\textit{sbctide.F90})]{Surface tides (\protect\mdl{sbctide})}
 \label{sec:SBC_tide}
 
-%------------------------------------------nam_tide---------------------------------------
-
-\nlst{nam_tide}
-%-----------------------------------------------------------------------------------------
+\begin{listing}
+  \nlst{nam_tide}
+  \caption{\forcode{&nam_tide}}
+  \label{lst:nam_tide}
+\end{listing}
 
 The tidal forcing, generated by the gravity forces of the Earth-Moon and Earth-Sun sytems,
-is activated if \np{ln\_tide} and \np{ln\_tide\_pot} are both set to \forcode{.true.} in \ngn{nam\_tide}.
-This translates as an additional barotropic force in the momentum equations \ref{eq:PE_dyn} such that:
+is activated if \np{ln_tide}{ln\_tide} and \np{ln_tide_pot}{ln\_tide\_pot} are both set to \forcode{.true.} in \nam{_tide}{\_tide}.
+This translates as an additional barotropic force in the momentum \autoref{eq:MB_PE_dyn} such that:
 \[
-  % \label{eq:PE_dyn_tides}
+  % \label{eq:SBC_PE_dyn_tides}
   \frac{\partial {\mathrm {\mathbf U}}_h }{\partial t}= ...
   +g\nabla (\Pi_{eq} + \Pi_{sal})
@@ -832 +1030 @@
 where $\Pi_{eq}$ stands for the equilibrium tidal forcing and
 $\Pi_{sal}$ is a self-attraction and loading term (SAL).
- 
+
 The equilibrium tidal forcing is expressed as a sum over a subset of
 constituents chosen from the set of available tidal constituents
-defined in file \rou{SBC/tide.h90} (this comprises the tidal
+defined in file \hf{SBC/tide} (this comprises the tidal
 constituents \textit{M2, N2, 2N2, S2, K2, K1, O1, Q1, P1, M4, Mf, Mm,
   Msqm, Mtm, S1, MU2, NU2, L2}, and \textit{T2}). Individual
 constituents are selected by including their names in the array
-\np{clname} in \ngn{nam\_tide} (e.g., \np{clname(1) = 'M2',
-  clname(2)='S2'} to select solely the tidal consituents \textit{M2}
-and \textit{S2}). Optionally, when \np{ln\_tide\_ramp} is set to
+\np{clname}{clname} in \nam{_tide}{\_tide} (e.g., \np{clname}{clname}\forcode{(1)='M2', }
+\np{clname}{clname}\forcode{(2)='S2'} to select solely the tidal consituents \textit{M2}
+and \textit{S2}). Optionally, when \np{ln_tide_ramp}{ln\_tide\_ramp} is set to
 \forcode{.true.}, the equilibrium tidal forcing can be ramped up
-linearly from zero during the initial \np{rdttideramp} days of the
+linearly from zero during the initial \np{rdttideramp}{rdttideramp} days of the
 model run.
 
@@ -850 +1048 @@
 discussion about the practical implementation of this term).
 Nevertheless, the complex calculations involved would make this
-computationally too expensive.  Here, two options are available:
+computationally too expensive. Here, two options are available:
 $\Pi_{sal}$ generated by an external model can be read in
-(\np{ln\_read\_load=.true.}), or a ``scalar approximation'' can be
-used (\np{ln\_scal\_load=.true.}). In the latter case
+(\np[=.true.]{ln_read_load}{ln\_read\_load}), or a ``scalar approximation'' can be
+used (\np[=.true.]{ln_scal_load}{ln\_scal\_load}). In the latter case
 \[
   \Pi_{sal} = \beta \eta,
 \]
-where $\beta$ (\np{rn\_scal\_load} with a default value of 0.094) is a
+where $\beta$ (\np{rn_scal_load}{rn\_scal\_load} with a default value of 0.094) is a
 spatially constant scalar, often chosen to minimize tidal prediction
-errors. Setting both \np{ln\_read\_load} and \np{ln\_scal\_load} to
+errors. Setting both \np{ln_read_load}{ln\_read\_load} and \np{ln_scal_load}{ln\_scal\_load} to
 \forcode{.false.} removes the SAL contribution.
 
-% ================================================================
-%        River runoffs
-% ================================================================
-\section[River runoffs (\textit{sbcrnf.F90})]
-{River runoffs (\protect\mdl{sbcrnf})}
+%% =================================================================================================
+\section[River runoffs (\textit{sbcrnf.F90})]{River runoffs (\protect\mdl{sbcrnf})}
 \label{sec:SBC_rnf}
-%------------------------------------------namsbc_rnf----------------------------------------------------
-
-\nlst{namsbc_rnf} 
-%-------------------------------------------------------------------------------------------------------------
-
-%River runoff generally enters the ocean at a nonzero depth rather than through the surface. 
+
+\begin{listing}
+  \nlst{namsbc_rnf}
+  \caption{\forcode{&namsbc_rnf}}
+  \label{lst:namsbc_rnf}
+\end{listing}
+
+%River runoff generally enters the ocean at a nonzero depth rather than through the surface.
 %Many models, however, have traditionally inserted river runoff to the top model cell.
-%This was the case in \NEMO prior to the version 3.3. The switch toward a input of runoff 
-%throughout a nonzero depth has been motivated by the numerical and physical problems 
-%that arise when the top grid cells are of the order of one meter. This situation is common in 
-%coastal modelling and becomes more and more often open ocean and climate modelling 
+%This was the case in \NEMO\ prior to the version 3.3. The switch toward a input of runoff
+%throughout a nonzero depth has been motivated by the numerical and physical problems
+%that arise when the top grid cells are of the order of one meter. This situation is common in
+%coastal modelling and becomes more and more often open ocean and climate modelling
 %\footnote{At least a top cells thickness of 1~meter and a 3 hours forcing frequency are
 %required to properly represent the diurnal cycle \citep{bernie.woolnough.ea_JC05}. see also \autoref{fig:SBC_dcy}.}.
 
-
-%To do this we need to treat evaporation/precipitation fluxes and river runoff differently in the 
-%\mdl{tra\_sbc} module.  We decided to separate them throughout the code, so that the variable 
-%\textit{emp} represented solely evaporation minus precipitation fluxes, and a new 2d variable 
-%rnf was added which represents the volume flux of river runoff (in kg/m2s to remain consistent with 
-%emp).  This meant many uses of emp and emps needed to be changed, a list of all modules which use 
+%To do this we need to treat evaporation/precipitation fluxes and river runoff differently in the
+%\mdl{tra\_sbc} module.  We decided to separate them throughout the code, so that the variable
+%\textit{emp} represented solely evaporation minus precipitation fluxes, and a new 2d variable
+%rnf was added which represents the volume flux of river runoff (in kg/m2s to remain consistent with
+%emp).  This meant many uses of emp and emps needed to be changed, a list of all modules which use
 %emp or emps and the changes made are below:
-
 
 %Rachel:
 River runoff generally enters the ocean at a nonzero depth rather than through the surface.
 Many models, however, have traditionally inserted river runoff to the top model cell.
-This was the case in \NEMO prior to the version 3.3,
+This was the case in \NEMO\ prior to the version 3.3,
 and was combined with an option to increase vertical mixing near the river mouth.
 
 However, with this method numerical and physical problems arise when the top grid cells are of the order of one meter.
-This situation is common in coastal modelling and is becoming more common in open ocean and climate modelling 
+This situation is common in coastal modelling and is becoming more common in open ocean and climate modelling
 \footnote{
   At least a top cells thickness of 1~meter and a 3 hours forcing frequency are required to
@@ -909 +1104 @@
 along with the depth (in metres) which the river should be added to.
 
-Namelist variables in \ngn{namsbc\_rnf}, \np{ln\_rnf\_depth}, \np{ln\_rnf\_sal} and
-\np{ln\_rnf\_temp} control whether the river attributes (depth, salinity and temperature) are read in and used.
+Namelist variables in \nam{sbc_rnf}{sbc\_rnf}, \np{ln_rnf_depth}{ln\_rnf\_depth}, \np{ln_rnf_sal}{ln\_rnf\_sal} and
+\np{ln_rnf_temp}{ln\_rnf\_temp} control whether the river attributes (depth, salinity and temperature) are read in and used.
 If these are set as false the river is added to the surface box only, assumed to be fresh (0~psu),
 and/or taken as surface temperature respectively.
 
-The runoff value and attributes are read in in sbcrnf.  
+The runoff value and attributes are read in in sbcrnf.
 For temperature -999 is taken as missing data and the river temperature is taken to
 be the surface temperatue at the river point.
-For the depth parameter a value of -1 means the river is added to the surface box only, 
-and a value of -999 means the river is added through the entire water column. 
+For the depth parameter a value of -1 means the river is added to the surface box only,
+and a value of -999 means the river is added through the entire water column.
 After being read in the temperature and salinity variables are multiplied by the amount of runoff
 (converted into m/s) to give the heat and salt content of the river runoff.
 After the user specified depth is read ini,
-the number of grid boxes this corresponds to is calculated and stored in the variable \np{nz\_rnf}.
+the number of grid boxes this corresponds to is calculated and stored in the variable \np{nz_rnf}{nz\_rnf}.
 The variable \textit{h\_dep} is then calculated to be the depth (in metres) of
 the bottom of the lowest box the river water is being added to
-(\ie the total depth that river water is being added to in the model).
+(\ie\ the total depth that river water is being added to in the model).
 
 The mass/volume addition due to the river runoff is, at each relevant depth level, added to
@@ -931 +1126 @@
 This increases the diffusion term in the vicinity of the river, thereby simulating a momentum flux.
 The sea surface height is calculated using the sum of the horizontal divergence terms,
-and so the river runoff indirectly forces an increase in sea surface height. 
+and so the river runoff indirectly forces an increase in sea surface height.
 
 The \textit{hdivn} terms are used in the tracer advection modules to force vertical velocities.
@@ -944 +1139 @@
 As such the volume of water does not change, but the water is diluted.
 
-For the non-linear free surface case (\key{vvl}), no flux is allowed through the surface.
+For the non-linear free surface case, no flux is allowed through the surface.
 Instead in the surface box (as well as water moving up from the boxes below) a volume of runoff water is added with
 no corresponding heat and salt addition and so as happens in the lower boxes there is a dilution effect.
@@ -953 +1148 @@
 This is done in the same way for both vvl and non-vvl.
 The temperature and salinity are increased through the specified depth according to
-the heat and salt content of the river. 
+the heat and salt content of the river.
 
 In the non-linear free surface case (vvl),
@@ -962 +1157 @@
 
 It is also possible for runnoff to be specified as a negative value for modelling flow through straits,
-\ie modelling the Baltic flow in and out of the North Sea.
+\ie\ modelling the Baltic flow in and out of the North Sea.
 When the flow is out of the domain there is no change in temperature and salinity,
 regardless of the namelist options used,
-as the ocean water leaving the domain removes heat and salt (at the same concentration) with it. 
-
-
-%\colorbox{yellow}{Nevertheless, Pb of vertical resolution and 3D input : increase vertical mixing near river mouths to mimic a 3D river 
+as the ocean water leaving the domain removes heat and salt (at the same concentration) with it.
+
+%\colorbox{yellow}{Nevertheless, Pb of vertical resolution and 3D input : increase vertical mixing near river mouths to mimic a 3D river
 
 %All river runoff and emp fluxes are assumed to be fresh water (zero salinity) and at the same temperature as the sea surface.}
@@ -978 +1172 @@
 %ENDIF
 
-%\gmcomment{  word doc of runoffs:
-%
-%In the current \NEMO setup river runoff is added to emp fluxes, these are then applied at just the sea surface as a volume change (in the variable volume case this is a literal volume change, and in the linear free surface case the free surface is moved) and a salt flux due to the concentration/dilution effect.  There is also an option to increase vertical mixing near river mouths; this gives the effect of having a 3d river.  All river runoff and emp fluxes are assumed to be fresh water (zero salinity) and at the same temperature as the sea surface.
-%Our aim was to code the option to specify the temperature and salinity of river runoff, (as well as the amount), along with the depth that the river water will affect.  This would make it possible to model low salinity outflow, such as the Baltic, and would allow the ocean temperature to be affected by river runoff.  
-
-%The depth option makes it possible to have the river water affecting just the surface layer, throughout depth, or some specified point in between.
-
-%To do this we need to treat evaporation/precipitation fluxes and river runoff differently in the tra_sbc module.  We decided to separate them throughout the code, so that the variable emp represented solely evaporation minus precipitation fluxes, and a new 2d variable rnf was added which represents the volume flux of river runoff (in kg/m2s to remain consistent with emp).  This meant many uses of emp and emps needed to be changed, a list of all modules which use emp or emps and the changes made are below:
-
-%}
-% ================================================================
-%        Ice shelf melting
-% ================================================================
-\section[Ice shelf melting (\textit{sbcisf.F90})]
-{Ice shelf melting (\protect\mdl{sbcisf})}
+\cmtgm{  word doc of runoffs:
+In the current \NEMO\ setup river runoff is added to emp fluxes,
+these are then applied at just the sea surface as a volume change (in the variable volume case
+this is a literal volume change, and in the linear free surface case the free surface is moved)
+and a salt flux due to the concentration/dilution effect.
+There is also an option to increase vertical mixing near river mouths;
+this gives the effect of having a 3d river.
+All river runoff and emp fluxes are assumed to be fresh water (zero salinity) and
+at the same temperature as the sea surface.
+Our aim was to code the option to specify the temperature and salinity of river runoff,
+(as well as the amount), along with the depth that the river water will affect.
+This would make it possible to model low salinity outflow, such as the Baltic,
+and would allow the ocean temperature to be affected by river runoff.
+
+The depth option makes it possible to have the river water affecting just the surface layer,
+throughout depth, or some specified point in between.
+
+To do this we need to treat evaporation/precipitation fluxes and river runoff differently in
+the \mdl{tra_sbc} module.
+We decided to separate them throughout the code,
+so that the variable emp represented solely evaporation minus precipitation fluxes,
+and a new 2d variable rnf was added which represents the volume flux of river runoff
+(in $kg/m^2s$ to remain consistent with $emp$).
+This meant many uses of emp and emps needed to be changed,
+a list of all modules which use $emp$ or $emps$ and the changes made are below:}
+
+%% =================================================================================================
+\section[Ice shelf melting (\textit{sbcisf.F90})]{Ice shelf melting (\protect\mdl{sbcisf})}
 \label{sec:SBC_isf}
-%------------------------------------------namsbc_isf----------------------------------------------------
-
-\nlst{namsbc_isf}
-%--------------------------------------------------------------------------------------------------------
-The namelist variable in \ngn{namsbc}, \np{nn\_isf}, controls the ice shelf representation.
-Description and result of sensitivity test to \np{nn\_isf} are presented in \citet{mathiot.jenkins.ea_GMD17}. 
+
+\begin{listing}
+  \nlst{namsbc_isf}
+  \caption{\forcode{&namsbc_isf}}
+  \label{lst:namsbc_isf}
+\end{listing}
+
+The namelist variable in \nam{sbc}{sbc}, \np{nn_isf}{nn\_isf}, controls the ice shelf representation.
+Description and result of sensitivity test to \np{nn_isf}{nn\_isf} are presented in \citet{mathiot.jenkins.ea_GMD17}.
 The different options are illustrated in \autoref{fig:SBC_isf}.
 
 \begin{description}
-\item[\np{nn\_isf}\forcode{ = 1}]:
-  The ice shelf cavity is represented (\np{ln\_isfcav}\forcode{ = .true.} needed).
+  \item [{\np[=1]{nn_isf}{nn\_isf}}]: The ice shelf cavity is represented (\np[=.true.]{ln_isfcav}{ln\_isfcav} needed).
   The fwf and heat flux are depending of the local water properties.
+
   Two different bulk formulae are available:
 
-   \begin{description}
-   \item[\np{nn\_isfblk}\forcode{ = 1}]:
-     The melt rate is based on a balance between the upward ocean heat flux and
-     the latent heat flux at the ice shelf base. A complete description is available in \citet{hunter_rpt06}.
-   \item[\np{nn\_isfblk}\forcode{ = 2}]:
-     The melt rate and the heat flux are based on a 3 equations formulation
-     (a heat flux budget at the ice base, a salt flux budget at the ice base and a linearised freezing point temperature equation). 
-     A complete description is available in \citet{jenkins_JGR91}.
-   \end{description}
-
-     Temperature and salinity used to compute the melt are the average temperature in the top boundary layer \citet{losch_JGR08}. 
-     Its thickness is defined by \np{rn\_hisf\_tbl}.
-     The fluxes and friction velocity are computed using the mean temperature, salinity and velocity in the the first \np{rn\_hisf\_tbl} m.
-     Then, the fluxes are spread over the same thickness (ie over one or several cells).
-     If \np{rn\_hisf\_tbl} larger than top $e_{3}t$, there is no more feedback between the freezing point at the interface and the the top cell temperature.
-     This can lead to super-cool temperature in the top cell under melting condition.
-     If \np{rn\_hisf\_tbl} smaller than top $e_{3}t$, the top boundary layer thickness is set to the top cell thickness.\\
-
-     Each melt bulk formula depends on a exchange coeficient ($\Gamma^{T,S}$) between the ocean and the ice. 
-     There are 3 different ways to compute the exchange coeficient:
-   \begin{description}
-        \item[\np{nn\_gammablk}\forcode{ = 0}]:
-     The salt and heat exchange coefficients are constant and defined by \np{rn\_gammas0} and \np{rn\_gammat0}. 
-\[
-  % \label{eq:sbc_isf_gamma_iso}
-\gamma^{T} = \np{rn\_gammat0}
-\]
-\[
-\gamma^{S} = \np{rn\_gammas0}
-\]
-     This is the recommended formulation for ISOMIP.
-   \item[\np{nn\_gammablk}\forcode{ = 1}]:
-     The salt and heat exchange coefficients are velocity dependent and defined as
-\[
-\gamma^{T} = \np{rn\_gammat0} \times u_{*} 
-\]
-\[
-\gamma^{S} = \np{rn\_gammas0} \times u_{*}
-\]
-     where $u_{*}$ is the friction velocity in the top boundary layer (ie first \np{rn\_hisf\_tbl} meters).
-     See \citet{jenkins.nicholls.ea_JPO10} for all the details on this formulation. It is the recommended formulation for realistic application.
-   \item[\np{nn\_gammablk}\forcode{ = 2}]:
-     The salt and heat exchange coefficients are velocity and stability dependent and defined as:
-\[
-\gamma^{T,S} = \frac{u_{*}}{\Gamma_{Turb} + \Gamma^{T,S}_{Mole}} 
-\]
-     where $u_{*}$ is the friction velocity in the top boundary layer (ie first \np{rn\_hisf\_tbl} meters),
-     $\Gamma_{Turb}$ the contribution of the ocean stability and
-     $\Gamma^{T,S}_{Mole}$ the contribution of the molecular diffusion.
-     See \citet{holland.jenkins_JPO99} for all the details on this formulation. 
-     This formulation has not been extensively tested in NEMO (not recommended).
-   \end{description}
- \item[\np{nn\_isf}\forcode{ = 2}]:
-   The ice shelf cavity is not represented.
-   The fwf and heat flux are computed using the \citet{beckmann.goosse_OM03} parameterisation of isf melting.
-   The fluxes are distributed along the ice shelf edge between the depth of the average grounding line (GL)
-   (\np{sn\_depmax\_isf}) and the base of the ice shelf along the calving front
-   (\np{sn\_depmin\_isf}) as in (\np{nn\_isf}\forcode{ = 3}).
-   The effective melting length (\np{sn\_Leff\_isf}) is read from a file.
- \item[\np{nn\_isf}\forcode{ = 3}]:
-   The ice shelf cavity is not represented.
-   The fwf (\np{sn\_rnfisf}) is prescribed and distributed along the ice shelf edge between
-   the depth of the average grounding line (GL) (\np{sn\_depmax\_isf}) and
-   the base of the ice shelf along the calving front (\np{sn\_depmin\_isf}).
-   The heat flux ($Q_h$) is computed as $Q_h = fwf \times L_f$.
- \item[\np{nn\_isf}\forcode{ = 4}]:
-   The ice shelf cavity is opened (\np{ln\_isfcav}\forcode{ = .true.} needed).
-   However, the fwf is not computed but specified from file \np{sn\_fwfisf}).
-   The heat flux ($Q_h$) is computed as $Q_h = fwf \times L_f$.
-   As in \np{nn\_isf}\forcode{ = 1}, the fluxes are spread over the top boundary layer thickness (\np{rn\_hisf\_tbl})\\
+  \begin{description}
+  \item [{\np[=1]{nn_isfblk}{nn\_isfblk}}]: The melt rate is based on a balance between the upward ocean heat flux and
+    the latent heat flux at the ice shelf base. A complete description is available in \citet{hunter_rpt06}.
+  \item [{\np[=2]{nn_isfblk}{nn\_isfblk}}]: The melt rate and the heat flux are based on a 3 equations formulation
+    (a heat flux budget at the ice base, a salt flux budget at the ice base and a linearised freezing point temperature equation).
+    A complete description is available in \citet{jenkins_JGR91}.
+  \end{description}
+
+  Temperature and salinity used to compute the melt are the average temperature in the top boundary layer \citet{losch_JGR08}.
+  Its thickness is defined by \np{rn_hisf_tbl}{rn\_hisf\_tbl}.
+  The fluxes and friction velocity are computed using the mean temperature, salinity and velocity in the the first \np{rn_hisf_tbl}{rn\_hisf\_tbl} m.
+  Then, the fluxes are spread over the same thickness (ie over one or several cells).
+  If \np{rn_hisf_tbl}{rn\_hisf\_tbl} larger than top $e_{3}t$, there is no more feedback between the freezing point at the interface and the the top cell temperature.
+  This can lead to super-cool temperature in the top cell under melting condition.
+  If \np{rn_hisf_tbl}{rn\_hisf\_tbl} smaller than top $e_{3}t$, the top boundary layer thickness is set to the top cell thickness.\\
+
+  Each melt bulk formula depends on a exchange coeficient ($\Gamma^{T,S}$) between the ocean and the ice.
+  There are 3 different ways to compute the exchange coeficient:
+  \begin{description}
+  \item [{\np[=0]{nn_gammablk}{nn\_gammablk}}]: The salt and heat exchange coefficients are constant and defined by \np{rn_gammas0}{rn\_gammas0} and \np{rn_gammat0}{rn\_gammat0}.
+    \begin{gather*}
+       % \label{eq:SBC_isf_gamma_iso}
+      \gamma^{T} = rn\_gammat0 \\
+      \gamma^{S} = rn\_gammas0
+    \end{gather*}
+    This is the recommended formulation for ISOMIP.
+  \item [{\np[=1]{nn_gammablk}{nn\_gammablk}}]: The salt and heat exchange coefficients are velocity dependent and defined as
+    \begin{gather*}
+      \gamma^{T} = rn\_gammat0 \times u_{*} \\
+      \gamma^{S} = rn\_gammas0 \times u_{*}
+    \end{gather*}
+    where $u_{*}$ is the friction velocity in the top boundary layer (ie first \np{rn_hisf_tbl}{rn\_hisf\_tbl} meters).
+    See \citet{jenkins.nicholls.ea_JPO10} for all the details on this formulation. It is the recommended formulation for realistic application.
+  \item [{\np[=2]{nn_gammablk}{nn\_gammablk}}]: The salt and heat exchange coefficients are velocity and stability dependent and defined as:
+    \[
+      \gamma^{T,S} = \frac{u_{*}}{\Gamma_{Turb} + \Gamma^{T,S}_{Mole}}
+    \]
+    where $u_{*}$ is the friction velocity in the top boundary layer (ie first \np{rn_hisf_tbl}{rn\_hisf\_tbl} meters),
+    $\Gamma_{Turb}$ the contribution of the ocean stability and
+    $\Gamma^{T,S}_{Mole}$ the contribution of the molecular diffusion.
+    See \citet{holland.jenkins_JPO99} for all the details on this formulation.
+    This formulation has not been extensively tested in \NEMO\ (not recommended).
+  \end{description}
+\item [{\np[=2]{nn_isf}{nn\_isf}}]: The ice shelf cavity is not represented.
+  The fwf and heat flux are computed using the \citet{beckmann.goosse_OM03} parameterisation of isf melting.
+  The fluxes are distributed along the ice shelf edge between the depth of the average grounding line (GL)
+  (\np{sn_depmax_isf}{sn\_depmax\_isf}) and the base of the ice shelf along the calving front
+  (\np{sn_depmin_isf}{sn\_depmin\_isf}) as in (\np[=3]{nn_isf}{nn\_isf}).
+  The effective melting length (\np{sn_Leff_isf}{sn\_Leff\_isf}) is read from a file.
+\item [{\np[=3]{nn_isf}{nn\_isf}}]: The ice shelf cavity is not represented.
+  The fwf (\np{sn_rnfisf}{sn\_rnfisf}) is prescribed and distributed along the ice shelf edge between
+  the depth of the average grounding line (GL) (\np{sn_depmax_isf}{sn\_depmax\_isf}) and
+  the base of the ice shelf along the calving front (\np{sn_depmin_isf}{sn\_depmin\_isf}).
+  The heat flux ($Q_h$) is computed as $Q_h = fwf \times L_f$.
+\item [{\np[=4]{nn_isf}{nn\_isf}}]: The ice shelf cavity is opened (\np[=.true.]{ln_isfcav}{ln\_isfcav} needed).
+  However, the fwf is not computed but specified from file \np{sn_fwfisf}{sn\_fwfisf}).
+  The heat flux ($Q_h$) is computed as $Q_h = fwf \times L_f$.
+  As in \np[=1]{nn_isf}{nn\_isf}, the fluxes are spread over the top boundary layer thickness (\np{rn_hisf_tbl}{rn\_hisf\_tbl})
 \end{description}
 
-$\bullet$ \np{nn\_isf}\forcode{ = 1} and \np{nn\_isf}\forcode{ = 2} compute a melt rate based on
+$\bullet$ \np[=1]{nn_isf}{nn\_isf} and \np[=2]{nn_isf}{nn\_isf} compute a melt rate based on
 the water mass properties, ocean velocities and depth.
 This flux is thus highly dependent of the model resolution (horizontal and vertical),
 realism of the water masses onto the shelf ...\\
 
-$\bullet$ \np{nn\_isf}\forcode{ = 3} and \np{nn\_isf}\forcode{ = 4} read the melt rate from a file.
+$\bullet$ \np[=3]{nn_isf}{nn\_isf} and \np[=4]{nn_isf}{nn\_isf} read the melt rate from a file.
 You have total control of the fwf forcing.
 This can be useful if the water masses on the shelf are not realistic or
 the resolution (horizontal/vertical) are too coarse to have realistic melting or
-for studies where you need to control your heat and fw input.\\ 
+for studies where you need to control your heat and fw input.\\
 
 The ice shelf melt is implemented as a volume flux as for the runoff.
@@ -1096 +1294 @@
 See the runoff section \autoref{sec:SBC_rnf} for all the details about the divergence correction.\\
 
-%>>>>>>>>>>>>>>>>>>>>>>>>>>>>
 \begin{figure}[!t]
-  \begin{center}
-    \includegraphics[width=\textwidth]{Fig_SBC_isf}
-    \caption{
-      \protect\label{fig:SBC_isf}
-      Illustration the location where the fwf is injected and whether or not the fwf is interactif or not depending of \np{nn\_isf}.
-    }
-  \end{center}
+  \centering
+  \includegraphics[width=0.66\textwidth]{SBC_isf}
+  \caption[Ice shelf location and fresh water flux definition]{
+    Illustration of the location where the fwf is injected and
+    whether or not the fwf is interactif or not depending of \protect\np{nn_isf}{nn\_isf}.}
+  \label{fig:SBC_isf}
 \end{figure}
-%>>>>>>>>>>>>>>>>>>>>>>>>>>>>
-
+
+%% =================================================================================================
 \section{Ice sheet coupling}
 \label{sec:SBC_iscpl}
-%------------------------------------------namsbc_iscpl----------------------------------------------------
-
-\nlst{namsbc_iscpl}
-%--------------------------------------------------------------------------------------------------------
+
+\begin{listing}
+  \nlst{namsbc_iscpl}
+  \caption{\forcode{&namsbc_iscpl}}
+  \label{lst:namsbc_iscpl}
+\end{listing}
+
 Ice sheet/ocean coupling is done through file exchange at the restart step.
 At each restart step:
-\begin{description}
-\item[Step 1]: the ice sheet model send a new bathymetry and ice shelf draft netcdf file.
-\item[Step 2]: a new domcfg.nc file is built using the DOMAINcfg tools.
-\item[Step 3]: NEMO run for a specific period and output the average melt rate over the period.
-\item[Step 4]: the ice sheet model run using the melt rate outputed in step 4.
-\item[Step 5]: go back to 1.
-\end{description}
-
-If \np{ln\_iscpl}\forcode{ = .true.}, the isf draft is assume to be different at each restart step with
+
+\begin{enumerate}
+\item the ice sheet model send a new bathymetry and ice shelf draft netcdf file.
+\item a new domcfg.nc file is built using the DOMAINcfg tools.
+\item \NEMO\ run for a specific period and output the average melt rate over the period.
+\item the ice sheet model run using the melt rate outputed in step 4.
+\item go back to 1.
+\end{enumerate}
+
+If \np[=.true.]{ln_iscpl}{ln\_iscpl}, the isf draft is assume to be different at each restart step with
 potentially some new wet/dry cells due to the ice sheet dynamics/thermodynamics.
 The wetting and drying scheme applied on the restart is very simple and described below for the 6 different possible cases:
+
 \begin{description}
-\item[Thin a cell down]:
-  T/S/ssh are unchanged and U/V in the top cell are corrected to keep the barotropic transport (bt) constant
+\item [Thin a cell down]: T/S/ssh are unchanged and U/V in the top cell are corrected to keep the barotropic transport (bt) constant
   ($bt_b=bt_n$).
-\item[Enlarge  a cell]:
-  See case "Thin a cell down"
-\item[Dry a cell]:
-  mask, T/S, U/V and ssh are set to 0.
+\item [Enlarge  a cell]: See case "Thin a cell down"
+\item [Dry a cell]: mask, T/S, U/V and ssh are set to 0.
   Furthermore, U/V into the water column are modified to satisfy ($bt_b=bt_n$).
-\item[Wet a cell]: 
-  mask is set to 1, T/S is extrapolated from neighbours, $ssh_n = ssh_b$ and U/V set to 0.
-  If no neighbours, T/S is extrapolated from old top cell value. 
+\item [Wet a cell]: mask is set to 1, T/S is extrapolated from neighbours, $ssh_n = ssh_b$ and U/V set to 0.
+  If no neighbours, T/S is extrapolated from old top cell value.
   If no neighbours along i,j and k (both previous test failed), T/S/U/V/ssh and mask are set to 0.
-\item[Dry a column]:
-   mask, T/S, U/V are set to 0 everywhere in the column and ssh set to 0.
-\item[Wet a column]:
-  set mask to 1, T/S is extrapolated from neighbours, ssh is extrapolated from neighbours and U/V set to 0.
+\item [Dry a column]: mask, T/S, U/V are set to 0 everywhere in the column and ssh set to 0.
+\item [Wet a column]: set mask to 1, T/S is extrapolated from neighbours, ssh is extrapolated from neighbours and U/V set to 0.
   If no neighbour, T/S/U/V and mask set to 0.
 \end{description}
@@ -1150 +1345 @@
 the restart time step is prescribed to be an euler time step instead of a leap frog and $fields_b = fields_n$.\\
 
-The horizontal extrapolation to fill new cell with realistic value is called \np{nn\_drown} times.
-It means that if the grounding line retreat by more than \np{nn\_drown} cells between 2 coupling steps,
+The horizontal extrapolation to fill new cell with realistic value is called \np{nn_drown}{nn\_drown} times.
+It means that if the grounding line retreat by more than \np{nn_drown}{nn\_drown} cells between 2 coupling steps,
 the code will be unable to fill all the new wet cells properly.
 The default number is set up for the MISOMIP idealised experiments.
 This coupling procedure is able to take into account grounding line and calving front migration.
-However, it is a non-conservative processe. 
+However, it is a non-conservative processe.
 This could lead to a trend in heat/salt content and volume.\\
 
 In order to remove the trend and keep the conservation level as close to 0 as possible,
-a simple conservation scheme is available with \np{ln\_hsb}\forcode{ = .true.}.
+a simple conservation scheme is available with \np[=.true.]{ln_hsb}{ln\_hsb}.
 The heat/salt/vol. gain/loss is diagnosed, as well as the location.
-A correction increment is computed and apply each time step during the next \np{rn\_fiscpl} time steps. 
-For safety, it is advised to set \np{rn\_fiscpl} equal to the coupling period (smallest increment possible).
+A correction increment is computed and apply each time step during the next \np{rn_fiscpl}{rn\_fiscpl} time steps.
+For safety, it is advised to set \np{rn_fiscpl}{rn\_fiscpl} equal to the coupling period (smallest increment possible).
 The corrective increment is apply into the cell itself (if it is a wet cell), the neigbouring cells or the closest wet cell (if the cell is now dry).
 
-%
-% ================================================================
-%        Handling of icebergs
-% ================================================================
+%% =================================================================================================
 \section{Handling of icebergs (ICB)}
-\label{sec:ICB_icebergs}
-%------------------------------------------namberg----------------------------------------------------
-
-\nlst{namberg}
-%-------------------------------------------------------------------------------------------------------------
-
-Icebergs are modelled as lagrangian particles in NEMO \citep{marsh.ivchenko.ea_GMD15}.
+\label{sec:SBC_ICB_icebergs}
+
+\begin{listing}
+  \nlst{namberg}
+  \caption{\forcode{&namberg}}
+  \label{lst:namberg}
+\end{listing}
+
+Icebergs are modelled as lagrangian particles in \NEMO\ \citep{marsh.ivchenko.ea_GMD15}.
 Their physical behaviour is controlled by equations as described in \citet{martin.adcroft_OM10} ).
-(Note that the authors kindly provided a copy of their code to act as a basis for implementation in NEMO).
+(Note that the authors kindly provided a copy of their code to act as a basis for implementation in \NEMO).
 Icebergs are initially spawned into one of ten classes which have specific mass and thickness as
-described in the \ngn{namberg} namelist: \np{rn\_initial\_mass} and \np{rn\_initial\_thickness}.
-Each class has an associated scaling (\np{rn\_mass\_scaling}),
+described in the \nam{berg}{berg} namelist: \np{rn_initial_mass}{rn\_initial\_mass} and \np{rn_initial_thickness}{rn\_initial\_thickness}.
+Each class has an associated scaling (\np{rn_mass_scaling}{rn\_mass\_scaling}),
 which is an integer representing how many icebergs of this class are being described as one lagrangian point
 (this reduces the numerical problem of tracking every single iceberg).
-They are enabled by setting \np{ln\_icebergs}\forcode{ = .true.}.
+They are enabled by setting \np[=.true.]{ln_icebergs}{ln\_icebergs}.
 
 Two initialisation schemes are possible.
 \begin{description}
-\item[\np{nn\_test\_icebergs}~$>$~0]
-  In this scheme, the value of \np{nn\_test\_icebergs} represents the class of iceberg to generate
-  (so between 1 and 10), and \np{nn\_test\_icebergs} provides a lon/lat box in the domain at each grid point of
+\item [{\np{nn_test_icebergs}{nn\_test\_icebergs}~$>$~0}] In this scheme, the value of \np{nn_test_icebergs}{nn\_test\_icebergs} represents the class of iceberg to generate
+  (so between 1 and 10), and \np{nn_test_icebergs}{nn\_test\_icebergs} provides a lon/lat box in the domain at each grid point of
   which an iceberg is generated at the beginning of the run.
-  (Note that this happens each time the timestep equals \np{nn\_nit000}.)
-  \np{nn\_test\_icebergs} is defined by four numbers in \np{nn\_test\_box} representing the corners of
+  (Note that this happens each time the timestep equals \np{nn_nit000}{nn\_nit000}.)
+  \np{nn_test_icebergs}{nn\_test\_icebergs} is defined by four numbers in \np{nn_test_box}{nn\_test\_box} representing the corners of
   the geographical box: lonmin,lonmax,latmin,latmax
-\item[\np{nn\_test\_icebergs}\forcode{ = -1}]
-  In this scheme the model reads a calving file supplied in the \np{sn\_icb} parameter.
+\item [{\np[=-1]{nn_test_icebergs}{nn\_test\_icebergs}}] In this scheme, the model reads a calving file supplied in the \np{sn_icb}{sn\_icb} parameter.
   This should be a file with a field on the configuration grid (typically ORCA)
   representing ice accumulation rate at each model point.
@@ -1204 +1396 @@
   At each time step, a test is performed to see if there is enough ice mass to
   calve an iceberg of each class in order (1 to 10).
-  Note that this is the initial mass multiplied by the number each particle represents (\ie the scaling).
+  Note that this is the initial mass multiplied by the number each particle represents (\ie\ the scaling).
   If there is enough ice, a new iceberg is spawned and the total available ice reduced accordingly.
 \end{description}
@@ -1211 +1403 @@
 The latter act to disintegrate the iceberg.
 This is either all melted freshwater,
-or (if \np{rn\_bits\_erosion\_fraction}~$>$~0) into melt and additionally small ice bits
+or (if \np{rn_bits_erosion_fraction}{rn\_bits\_erosion\_fraction}~$>$~0) into melt and additionally small ice bits
 which are assumed to propagate with their larger parent and thus delay fluxing into the ocean.
-Melt water (and other variables on the configuration grid) are written into the main NEMO model output files.
+Melt water (and other variables on the configuration grid) are written into the main \NEMO\ model output files.
 
 Extensive diagnostics can be produced.
 Separate output files are maintained for human-readable iceberg information.
-A separate file is produced for each processor (independent of \np{ln\_ctl}).
+A separate file is produced for each processor (independent of \np{ln_ctl}{ln\_ctl}).
 The amount of information is controlled by two integer parameters:
 \begin{description}
-\item[\np{nn\_verbose\_level}] takes a value between one and four and
+\item [{\np{nn_verbose_level}{nn\_verbose\_level}}] takes a value between one and four and
   represents an increasing number of points in the code at which variables are written,
   and an increasing level of obscurity.
-\item[\np{nn\_verbose\_write}] is the number of timesteps between writes
+\item [{\np{nn_verbose_write}{nn\_verbose\_write}}] is the number of timesteps between writes
 \end{description}
 
-Iceberg trajectories can also be written out and this is enabled by setting \np{nn\_sample\_rate}~$>$~0.
+Iceberg trajectories can also be written out and this is enabled by setting \np{nn_sample_rate}{nn\_sample\_rate}~$>$~0.
 A non-zero value represents how many timesteps between writes of information into the output file.
 These output files are in NETCDF format.
@@ -1234 +1426 @@
 since its trajectory data may be spread across multiple files.
 
-% -------------------------------------------------------------------------------------------------------------
-%        Interactions with waves (sbcwave.F90, ln_wave)
-% -------------------------------------------------------------------------------------------------------------
-\section[Interactions with waves (\textit{sbcwave.F90}, \texttt{ln\_wave})]
-{Interactions with waves (\protect\mdl{sbcwave}, \protect\np{ln\_wave})}
+%% =================================================================================================
+\section[Interactions with waves (\textit{sbcwave.F90}, \forcode{ln_wave})]{Interactions with waves (\protect\mdl{sbcwave}, \protect\np{ln_wave}{ln\_wave})}
 \label{sec:SBC_wave}
-%------------------------------------------namsbc_wave--------------------------------------------------------
-
-\nlst{namsbc_wave}
-%-------------------------------------------------------------------------------------------------------------
-
-Ocean waves represent the interface between the ocean and the atmosphere, so NEMO is extended to incorporate 
-physical processes related to ocean surface waves, namely the surface stress modified by growth and 
-dissipation of the oceanic wave field, the Stokes-Coriolis force and the Stokes drift impact on mass and 
-tracer advection; moreover the neutral surface drag coefficient from a wave model can be used to evaluate 
+
+\begin{listing}
+  \nlst{namsbc_wave}
+  \caption{\forcode{&namsbc_wave}}
+  \label{lst:namsbc_wave}
+\end{listing}
+
+Ocean waves represent the interface between the ocean and the atmosphere, so \NEMO\ is extended to incorporate
+physical processes related to ocean surface waves, namely the surface stress modified by growth and
+dissipation of the oceanic wave field, the Stokes-Coriolis force and the Stokes drift impact on mass and
+tracer advection; moreover the neutral surface drag coefficient from a wave model can be used to evaluate
 the wind stress.
 
-Physical processes related to ocean surface waves can be accounted by setting the logical variable 
-\np{ln\_wave}\forcode{= .true.} in \ngn{namsbc} namelist. In addition, specific flags accounting for 
-different porcesses should be activated as explained in the following sections.
+Physical processes related to ocean surface waves can be accounted by setting the logical variable
+\np[=.true.]{ln_wave}{ln\_wave} in \nam{sbc}{sbc} namelist. In addition, specific flags accounting for
+different processes should be activated as explained in the following sections.
 
 Wave fields can be provided either in forced or coupled mode:
 \begin{description}
-\item[forced mode]: wave fields should be defined through the \ngn{namsbc\_wave} namelist 
-for external data names, locations, frequency, interpolation and all the miscellanous options allowed by 
-Input Data generic Interface (see \autoref{sec:SBC_input}). 
-\item[coupled mode]: NEMO and an external wave model can be coupled by setting \np{ln\_cpl} \forcode{= .true.} 
-in \ngn{namsbc} namelist and filling the \ngn{namsbc\_cpl} namelist.
+\item [forced mode]: wave fields should be defined through the \nam{sbc_wave}{sbc\_wave} namelist
+for external data names, locations, frequency, interpolation and all the miscellanous options allowed by
+Input Data generic Interface (see \autoref{sec:SBC_input}).
+\item [coupled mode]: \NEMO\ and an external wave model can be coupled by setting \np[=.true.]{ln_cpl}{ln\_cpl}
+in \nam{sbc}{sbc} namelist and filling the \nam{sbc_cpl}{sbc\_cpl} namelist.
 \end{description}
 
-
-% ================================================================
-% Neutral drag coefficient from wave model (ln_cdgw)
-
-% ================================================================
-\subsection[Neutral drag coefficient from wave model (\texttt{ln\_cdgw})]
-{Neutral drag coefficient from wave model (\protect\np{ln\_cdgw})}
+%% =================================================================================================
+\subsection[Neutral drag coefficient from wave model (\forcode{ln_cdgw})]{Neutral drag coefficient from wave model (\protect\np{ln_cdgw}{ln\_cdgw})}
 \label{subsec:SBC_wave_cdgw}
 
-The neutral surface drag coefficient provided from an external data source (\ie a wave model), 
-can be used by setting the logical variable \np{ln\_cdgw} \forcode{= .true.} in \ngn{namsbc} namelist. 
-Then using the routine \rou{turb\_ncar} and starting from the neutral drag coefficent provided, 
-the drag coefficient is computed according to the stable/unstable conditions of the 
-air-sea interface following \citet{large.yeager_rpt04}. 
-
-
-% ================================================================
-% 3D Stokes Drift (ln_sdw, nn_sdrift)
-% ================================================================
-\subsection[3D Stokes Drift (\texttt{ln\_sdw}, \texttt{nn\_sdrift})]
-{3D Stokes Drift (\protect\np{ln\_sdw, nn\_sdrift})}
+The neutral surface drag coefficient provided from an external data source (\ie\ a wave model),
+can be used by setting the logical variable \np[=.true.]{ln_cdgw}{ln\_cdgw} in \nam{sbc}{sbc} namelist.
+Then using the routine \rou{sbcblk\_algo\_ncar} and starting from the neutral drag coefficent provided,
+the drag coefficient is computed according to the stable/unstable conditions of the
+air-sea interface following \citet{large.yeager_rpt04}.
+
+%% =================================================================================================
+\subsection[3D Stokes Drift (\forcode{ln_sdw} \& \forcode{nn_sdrift})]{3D Stokes Drift (\protect\np{ln_sdw}{ln\_sdw} \& \np{nn_sdrift}{nn\_sdrift})}
 \label{subsec:SBC_wave_sdw}
 
-The Stokes drift is a wave driven mechanism of mass and momentum transport \citep{stokes_ibk09}. 
-It is defined as the difference between the average velocity of a fluid parcel (Lagrangian velocity) 
-and the current measured at a fixed point (Eulerian velocity). 
-As waves travel, the water particles that make up the waves travel in orbital motions but 
-without a closed path. Their movement is enhanced at the top of the orbit and slowed slightly 
-at the bottom so the result is a net forward motion of water particles, referred to as the Stokes drift. 
-An accurate evaluation of the Stokes drift and the inclusion of related processes may lead to improved 
-representation of surface physics in ocean general circulation models.
-The Stokes drift velocity $\mathbf{U}_{st}$ in deep water can be computed from the wave spectrum and may be written as: 
+The Stokes drift is a wave driven mechanism of mass and momentum transport \citep{stokes_ibk09}.
+It is defined as the difference between the average velocity of a fluid parcel (Lagrangian velocity)
+and the current measured at a fixed point (Eulerian velocity).
+As waves travel, the water particles that make up the waves travel in orbital motions but
+without a closed path. Their movement is enhanced at the top of the orbit and slowed slightly
+at the bottom, so the result is a net forward motion of water particles, referred to as the Stokes drift.
+An accurate evaluation of the Stokes drift and the inclusion of related processes may lead to improved
+representation of surface physics in ocean general circulation models. %GS: reference needed
+The Stokes drift velocity $\mathbf{U}_{st}$ in deep water can be computed from the wave spectrum and may be written as:
 
 \[
-  % \label{eq:sbc_wave_sdw}
+  % \label{eq:SBC_wave_sdw}
   \mathbf{U}_{st} = \frac{16{\pi^3}} {g}
   \int_0^\infty \int_{-\pi}^{\pi} (cos{\theta},sin{\theta}) {f^3}
@@ -1304 +1486 @@
 \]
 
-where: ${\theta}$ is the wave direction, $f$ is the wave intrinsic frequency, 
-$\mathrm{S}($f$,\theta)$ is the 2D frequency-direction spectrum, 
-$k$ is the mean wavenumber defined as: 
+where: ${\theta}$ is the wave direction, $f$ is the wave intrinsic frequency,
+$\mathrm{S}($f$,\theta)$ is the 2D frequency-direction spectrum,
+$k$ is the mean wavenumber defined as:
 $k=\frac{2\pi}{\lambda}$ (being $\lambda$ the wavelength). \\
 
-In order to evaluate the Stokes drift in a realistic ocean wave field the wave spectral shape is required 
-and its computation quickly becomes expensive as the 2D spectrum must be integrated for each vertical level. 
+In order to evaluate the Stokes drift in a realistic ocean wave field, the wave spectral shape is required
+and its computation quickly becomes expensive as the 2D spectrum must be integrated for each vertical level.
 To simplify, it is customary to use approximations to the full Stokes profile.
-Three possible parameterizations for the calculation for the approximate Stokes drift velocity profile 
-are included in the code through the \np{nn\_sdrift} parameter once provided the surface Stokes drift 
-$\mathbf{U}_{st |_{z=0}}$ which is evaluated by an external wave model that accurately reproduces the wave spectra 
-and makes possible the estimation of the surface Stokes drift for random directional waves in 
+Three possible parameterizations for the calculation for the approximate Stokes drift velocity profile
+are included in the code through the \np{nn_sdrift}{nn\_sdrift} parameter once provided the surface Stokes drift
+$\mathbf{U}_{st |_{z=0}}$ which is evaluated by an external wave model that accurately reproduces the wave spectra
+and makes possible the estimation of the surface Stokes drift for random directional waves in
 realistic wave conditions:
 
 \begin{description}
-\item[\np{nn\_sdrift} = 0]: exponential integral profile parameterization proposed by 
+\item [{\np{nn_sdrift}{nn\_sdrift} = 0}]: exponential integral profile parameterization proposed by
 \citet{breivik.janssen.ea_JPO14}:
 
 \[
-  % \label{eq:sbc_wave_sdw_0a}
-  \mathbf{U}_{st} \cong \mathbf{U}_{st |_{z=0}} \frac{\mathrm{e}^{-2k_ez}} {1-8k_ez} 
+  % \label{eq:SBC_wave_sdw_0a}
+  \mathbf{U}_{st} \cong \mathbf{U}_{st |_{z=0}} \frac{\mathrm{e}^{-2k_ez}} {1-8k_ez}
 \]
 
@@ -1330 +1512 @@
 
 \[
-  % \label{eq:sbc_wave_sdw_0b}
+  % \label{eq:SBC_wave_sdw_0b}
   k_e = \frac{|\mathbf{U}_{\left.st\right|_{z=0}}|} {|T_{st}|}
   \quad \text{and }\
-  T_{st} = \frac{1}{16} \bar{\omega} H_s^2 
+  T_{st} = \frac{1}{16} \bar{\omega} H_s^2
 \]
 
 where $H_s$ is the significant wave height and $\omega$ is the wave frequency.
 
-\item[\np{nn\_sdrift} = 1]: velocity profile based on the Phillips spectrum which is considered to be a 
-reasonable estimate of the part of the spectrum most contributing to the Stokes drift velocity near the surface
+\item [{\np{nn_sdrift}{nn\_sdrift} = 1}]: velocity profile based on the Phillips spectrum which is considered to be a
+reasonable estimate of the part of the spectrum mostly contributing to the Stokes drift velocity near the surface
 \citep{breivik.bidlot.ea_OM16}:
 
 \[
-  % \label{eq:sbc_wave_sdw_1}
+  % \label{eq:SBC_wave_sdw_1}
   \mathbf{U}_{st} \cong \mathbf{U}_{st |_{z=0}} \Big[exp(2k_pz)-\beta \sqrt{-2 \pi k_pz}
   \textit{ erf } \Big(\sqrt{-2 k_pz}\Big)\Big]
@@ -1350 +1532 @@
 where $erf$ is the complementary error function and $k_p$ is the peak wavenumber.
 
-\item[\np{nn\_sdrift} = 2]: velocity profile based on the Phillips spectrum as for \np{nn\_sdrift} = 1 
+\item [{\np{nn_sdrift}{nn\_sdrift} = 2}]: velocity profile based on the Phillips spectrum as for \np{nn_sdrift}{nn\_sdrift} = 1
 but using the wave frequency from a wave model.
 
 \end{description}
 
-The Stokes drift enters the wave-averaged momentum equation, as well as the tracer advection equations 
-and its effect on the evolution of the sea-surface height ${\eta}$ is considered as follows: 
+The Stokes drift enters the wave-averaged momentum equation, as well as the tracer advection equations
+and its effect on the evolution of the sea-surface height ${\eta}$ is considered as follows:
 
 \[
-  % \label{eq:sbc_wave_eta_sdw}
+  % \label{eq:SBC_wave_eta_sdw}
   \frac{\partial{\eta}}{\partial{t}} =
   -\nabla_h \int_{-H}^{\eta} (\mathbf{U} + \mathbf{U}_{st}) dz
 \]
 
-The tracer advection equation is also modified in order for Eulerian ocean models to properly account 
-for unresolved wave effect. The divergence of the wave tracer flux equals the mean tracer advection 
-that is induced by the three-dimensional Stokes velocity. 
-The advective equation for a tracer $c$ combining the effects of the mean current and sea surface waves 
-can be formulated as follows: 
+The tracer advection equation is also modified in order for Eulerian ocean models to properly account
+for unresolved wave effect. The divergence of the wave tracer flux equals the mean tracer advection
+that is induced by the three-dimensional Stokes velocity.
+The advective equation for a tracer $c$ combining the effects of the mean current and sea surface waves
+can be formulated as follows:
 
 \[
-  % \label{eq:sbc_wave_tra_sdw}
+  % \label{eq:SBC_wave_tra_sdw}
   \frac{\partial{c}}{\partial{t}} =
   - (\mathbf{U} + \mathbf{U}_{st}) \cdot \nabla{c}
 \]
 
-
-% ================================================================
-% Stokes-Coriolis term (ln_stcor)
-% ================================================================
-\subsection[Stokes-Coriolis term (\texttt{ln\_stcor})]
-{Stokes-Coriolis term (\protect\np{ln\_stcor})}
+%% =================================================================================================
+\subsection[Stokes-Coriolis term (\forcode{ln_stcor})]{Stokes-Coriolis term (\protect\np{ln_stcor}{ln\_stcor})}
 \label{subsec:SBC_wave_stcor}
 
-In a rotating ocean, waves exert a wave-induced stress on the mean ocean circulation which results 
-in a force equal to $\mathbf{U}_{st}$×$f$, where $f$ is the Coriolis parameter. 
-This additional force may have impact on the Ekman turning of the surface current. 
-In order to include this term, once evaluated the Stokes drift (using one of the 3 possible 
-approximations described in \autoref{subsec:SBC_wave_sdw}), 
-\np{ln\_stcor}\forcode{ = .true.} has to be set.
-
-
-% ================================================================
-% Waves modified stress (ln_tauwoc, ln_tauw)
-% ================================================================
-\subsection[Wave modified sress (\texttt{ln\_tauwoc}, \texttt{ln\_tauw})]
-{Wave modified sress (\protect\np{ln\_tauwoc, ln\_tauw})}
+In a rotating ocean, waves exert a wave-induced stress on the mean ocean circulation which results
+in a force equal to $\mathbf{U}_{st}$×$f$, where $f$ is the Coriolis parameter.
+This additional force may have impact on the Ekman turning of the surface current.
+In order to include this term, once evaluated the Stokes drift (using one of the 3 possible
+approximations described in \autoref{subsec:SBC_wave_sdw}),
+\np[=.true.]{ln_stcor}{ln\_stcor} has to be set.
+
+%% =================================================================================================
+\subsection[Wave modified stress (\forcode{ln_tauwoc} \& \forcode{ln_tauw})]{Wave modified sress (\protect\np{ln_tauwoc}{ln\_tauwoc} \& \np{ln_tauw}{ln\_tauw})}
 \label{subsec:SBC_wave_tauw}
 
-The surface stress felt by the ocean is the atmospheric stress minus the net stress going 
-into the waves \citep{janssen.breivik.ea_rpt13}. Therefore, when waves are growing, momentum and energy is spent and is not 
-available for forcing the mean circulation, while in the opposite case of a decaying sea 
-state more momentum is available for forcing the ocean. 
-Only when the sea state is in equilibrium the ocean is forced by the atmospheric stress, 
-but in practice an equilibrium sea state is a fairly rare event. 
-So the atmospheric stress felt by the ocean circulation $\tau_{oc,a}$ can be expressed as: 
+The surface stress felt by the ocean is the atmospheric stress minus the net stress going
+into the waves \citep{janssen.breivik.ea_rpt13}. Therefore, when waves are growing, momentum and energy is spent and is not
+available for forcing the mean circulation, while in the opposite case of a decaying sea
+state, more momentum is available for forcing the ocean.
+Only when the sea state is in equilibrium, the ocean is forced by the atmospheric stress,
+but in practice, an equilibrium sea state is a fairly rare event.
+So the atmospheric stress felt by the ocean circulation $\tau_{oc,a}$ can be expressed as:
 
 \[
-  % \label{eq:sbc_wave_tauoc}
+  % \label{eq:SBC_wave_tauoc}
   \tau_{oc,a} = \tau_a - \tau_w
 \]
@@ -1416 +1590 @@
 
 \[
-  % \label{eq:sbc_wave_tauw}
+  % \label{eq:SBC_wave_tauw}
   \tau_w = \rho g \int {\frac{dk}{c_p} (S_{in}+S_{nl}+S_{diss})}
 \]
 
 where: $c_p$ is the phase speed of the gravity waves,
-$S_{in}$, $S_{nl}$ and $S_{diss}$ are three source terms that represent 
-the physics of ocean waves. The first one, $S_{in}$, describes the generation 
-of ocean waves by wind and therefore represents the momentum and energy transfer 
-from air to ocean waves; the second term $S_{nl}$ denotes 
-the nonlinear transfer by resonant four-wave interactions; while the third term $S_{diss}$ 
-describes the dissipation of waves by processes such as white-capping, large scale breaking 
+$S_{in}$, $S_{nl}$ and $S_{diss}$ are three source terms that represent
+the physics of ocean waves. The first one, $S_{in}$, describes the generation
+of ocean waves by wind and therefore represents the momentum and energy transfer
+from air to ocean waves; the second term $S_{nl}$ denotes
+the nonlinear transfer by resonant four-wave interactions; while the third term $S_{diss}$
+describes the dissipation of waves by processes such as white-capping, large scale breaking
 eddy-induced damping.
 
-The wave stress derived from an external wave model can be provided either through the normalized 
-wave stress into the ocean by setting \np{ln\_tauwoc}\forcode{ = .true.}, or through the zonal and 
-meridional stress components by setting \np{ln\_tauw}\forcode{ = .true.}.
-
-
-% ================================================================
-% Miscellanea options
-% ================================================================
+The wave stress derived from an external wave model can be provided either through the normalized
+wave stress into the ocean by setting \np[=.true.]{ln_tauwoc}{ln\_tauwoc}, or through the zonal and
+meridional stress components by setting \np[=.true.]{ln_tauw}{ln\_tauw}.
+
+%% =================================================================================================
 \section{Miscellaneous options}
 \label{sec:SBC_misc}
 
-% -------------------------------------------------------------------------------------------------------------
-%        Diurnal cycle
-% -------------------------------------------------------------------------------------------------------------
-\subsection[Diurnal cycle (\textit{sbcdcy.F90})]
-{Diurnal cycle (\protect\mdl{sbcdcy})}
+%% =================================================================================================
+\subsection[Diurnal cycle (\textit{sbcdcy.F90})]{Diurnal cycle (\protect\mdl{sbcdcy})}
 \label{subsec:SBC_dcy}
-%------------------------------------------namsbc_rnf----------------------------------------------------
-%
-\nlst{namsbc} 
-%-------------------------------------------------------------------------------------------------------------
-
-%>>>>>>>>>>>>>>>>>>>>>>>>>>>>
+
 \begin{figure}[!t]
-  \begin{center}
-    \includegraphics[width=\textwidth]{Fig_SBC_diurnal}
-    \caption{
-      \protect\label{fig:SBC_diurnal}
-      Example of recontruction of the diurnal cycle variation of short wave flux from daily mean values.
-      The reconstructed diurnal cycle (black line) is chosen as
-      the mean value of the analytical cycle (blue line) over a time step,
-      not as the mid time step value of the analytically cycle (red square).
-      From \citet{bernie.guilyardi.ea_CD07}.
-    }
-  \end{center}
+  \centering
+  \includegraphics[width=0.66\textwidth]{SBC_diurnal}
+  \caption[Reconstruction of the diurnal cycle variation of short wave flux]{
+    Example of reconstruction of the diurnal cycle variation of short wave flux from
+    daily mean values.
+    The reconstructed diurnal cycle (black line) is chosen as
+    the mean value of the analytical cycle (blue line) over a time step,
+    not as the mid time step value of the analytically cycle (red square).
+    From \citet{bernie.guilyardi.ea_CD07}.}
+  \label{fig:SBC_diurnal}
 \end{figure}
-%>>>>>>>>>>>>>>>>>>>>>>>>>>>>
 
 \cite{bernie.woolnough.ea_JC05} have shown that to capture 90$\%$ of the diurnal variability of SST requires a vertical resolution in upper ocean of 1~m or better and a temporal resolution of the surface fluxes of 3~h or less.
-Unfortunately high frequency forcing fields are rare, not to say inexistent.
-Nevertheless, it is possible to obtain a reasonable diurnal cycle of the SST knowning only short wave flux (SWF) at
-high frequency \citep{bernie.guilyardi.ea_CD07}.
+%Unfortunately high frequency forcing fields are rare, not to say inexistent. GS: not true anymore !
+Nevertheless, it is possible to obtain a reasonable diurnal cycle of the SST knowning only short wave flux (SWF) at high frequency \citep{bernie.guilyardi.ea_CD07}.
 Furthermore, only the knowledge of daily mean value of SWF is needed,
 as higher frequency variations can be reconstructed from them,
 assuming that the diurnal cycle of SWF is a scaling of the top of the atmosphere diurnal cycle of incident SWF.
-The \cite{bernie.guilyardi.ea_CD07} reconstruction algorithm is available in \NEMO by
-setting \np{ln\_dm2dc}\forcode{ = .true.} (a \textit{\ngn{namsbc}} namelist variable) when
-using CORE bulk formulea (\np{ln\_blk\_core}\forcode{ = .true.}) or
-the flux formulation (\np{ln\_flx}\forcode{ = .true.}).
+The \cite{bernie.guilyardi.ea_CD07} reconstruction algorithm is available in \NEMO\ by
+setting \np[=.true.]{ln_dm2dc}{ln\_dm2dc} (a \textit{\nam{sbc}{sbc}} namelist variable) when
+using a bulk formulation (\np[=.true.]{ln_blk}{ln\_blk}) or
+the flux formulation (\np[=.true.]{ln_flx}{ln\_flx}).
 The reconstruction is performed in the \mdl{sbcdcy} module.
 The detail of the algoritm used can be found in the appendix~A of \cite{bernie.guilyardi.ea_CD07}.
-The algorithm preserve the daily mean incoming SWF as the reconstructed SWF at
+The algorithm preserves the daily mean incoming SWF as the reconstructed SWF at
 a given time step is the mean value of the analytical cycle over this time step (\autoref{fig:SBC_diurnal}).
 The use of diurnal cycle reconstruction requires the input SWF to be daily
-(\ie a frequency of 24 and a time interpolation set to true in \np{sn\_qsr} namelist parameter).
-Furthermore, it is recommended to have a least 8 surface module time step per day,
+(\ie\ a frequency of 24 hours and a time interpolation set to true in \np{sn_qsr}{sn\_qsr} namelist parameter).
+Furthermore, it is recommended to have a least 8 surface module time steps per day,
 that is  $\rdt \ nn\_fsbc < 10,800~s = 3~h$.
 An example of recontructed SWF is given in \autoref{fig:SBC_dcy} for a 12 reconstructed diurnal cycle,
 one every 2~hours (from 1am to 11pm).
 
-%>>>>>>>>>>>>>>>>>>>>>>>>>>>>
 \begin{figure}[!t]
-  \begin{center}
-    \includegraphics[width=\textwidth]{Fig_SBC_dcy}
-    \caption{
-      \protect\label{fig:SBC_dcy}
-      Example of recontruction of the diurnal cycle variation of short wave flux from
-      daily mean values on an ORCA2 grid with a time sampling of 2~hours (from 1am to 11pm).
-      The display is on (i,j) plane.
-    }
-  \end{center}
+  \centering
+  \includegraphics[width=0.66\textwidth]{SBC_dcy}
+  \caption[Reconstruction of the diurnal cycle variation of short wave flux on an ORCA2 grid]{
+    Example of reconstruction of the diurnal cycle variation of short wave flux from
+    daily mean values on an ORCA2 grid with a time sampling of 2~hours (from 1am to 11pm).
+    The display is on (i,j) plane.}
+  \label{fig:SBC_dcy}
 \end{figure}
-%>>>>>>>>>>>>>>>>>>>>>>>>>>>>
 
 Note also that the setting a diurnal cycle in SWF is highly recommended when
@@ -1507 +1663 @@
 an inconsistency between the scale of the vertical resolution and the forcing acting on that scale.
 
-% -------------------------------------------------------------------------------------------------------------
-%        Rotation of vector pairs onto the model grid directions
-% -------------------------------------------------------------------------------------------------------------
+%% =================================================================================================
 \subsection{Rotation of vector pairs onto the model grid directions}
 \label{subsec:SBC_rotation}
 
-When using a flux (\np{ln\_flx}\forcode{ = .true.}) or
-bulk (\np{ln\_clio}\forcode{ = .true.} or \np{ln\_core}\forcode{ = .true.}) formulation,
+When using a flux (\np[=.true.]{ln_flx}{ln\_flx}) or bulk (\np[=.true.]{ln_blk}{ln\_blk}) formulation,
 pairs of vector components can be rotated from east-north directions onto the local grid directions.
 This is particularly useful when interpolation on the fly is used since here any vectors are likely to
 be defined relative to a rectilinear grid.
-To activate this option a non-empty string is supplied in the rotation pair column of the relevant namelist.
-The eastward component must start with "U" and the northward component with "V".  
+To activate this option, a non-empty string is supplied in the rotation pair column of the relevant namelist.
+The eastward component must start with "U" and the northward component with "V".
 The remaining characters in the strings are used to identify which pair of components go together.
 So for example, strings "U1" and "V1" next to "utau" and "vtau" would pair the wind stress components together and
@@ -1527 +1680 @@
 The rot\_rep routine from the \mdl{geo2ocean} module is used to perform the rotation.
 
-% -------------------------------------------------------------------------------------------------------------
-%        Surface restoring to observed SST and/or SSS
-% -------------------------------------------------------------------------------------------------------------
-\subsection[Surface restoring to observed SST and/or SSS (\textit{sbcssr.F90})]
-{Surface restoring to observed SST and/or SSS (\protect\mdl{sbcssr})}
+%% =================================================================================================
+\subsection[Surface restoring to observed SST and/or SSS (\textit{sbcssr.F90})]{Surface restoring to observed SST and/or SSS (\protect\mdl{sbcssr})}
 \label{subsec:SBC_ssr}
-%------------------------------------------namsbc_ssr----------------------------------------------------
-
-\nlst{namsbc_ssr} 
-%-------------------------------------------------------------------------------------------------------------
-
-IOptions are defined through the \ngn{namsbc\_ssr} namelist variables.
-On forced mode using a flux formulation (\np{ln\_flx}\forcode{ = .true.}),
+
+\begin{listing}
+  \nlst{namsbc_ssr}
+  \caption{\forcode{&namsbc_ssr}}
+  \label{lst:namsbc_ssr}
+\end{listing}
+
+Options are defined through the \nam{sbc_ssr}{sbc\_ssr} namelist variables.
+On forced mode using a flux formulation (\np[=.true.]{ln_flx}{ln\_flx}),
 a feedback term \emph{must} be added to the surface heat flux $Q_{ns}^o$:
 \[
-  % \label{eq:sbc_dmp_q}
+  % \label{eq:SBC_dmp_q}
   Q_{ns} = Q_{ns}^o + \frac{dQ}{dT} \left( \left. T \right|_{k=1} - SST_{Obs} \right)
 \]
@@ -1548 +1700 @@
 $T$ is the model surface layer temperature and
 $\frac{dQ}{dT}$ is a negative feedback coefficient usually taken equal to $-40~W/m^2/K$.
-For a $50~m$ mixed-layer depth, this value corresponds to a relaxation time scale of two months. 
-This term ensures that if $T$ perfectly matches the supplied SST, then $Q$ is equal to $Q_o$. 
+For a $50~m$ mixed-layer depth, this value corresponds to a relaxation time scale of two months.
+This term ensures that if $T$ perfectly matches the supplied SST, then $Q$ is equal to $Q_o$.
 
 In the fresh water budget, a feedback term can also be added.
@@ -1555 +1707 @@
 
 \begin{equation}
-  \label{eq:sbc_dmp_emp}
+  \label{eq:SBC_dmp_emp}
   \textit{emp} = \textit{emp}_o + \gamma_s^{-1} e_{3t}  \frac{  \left(\left.S\right|_{k=1}-SSS_{Obs}\right)}
   {\left.S\right|_{k=1}}
@@ -1566 +1718 @@
 $\left.S\right|_{k=1}$ is the model surface layer salinity and
 $\gamma_s$ is a negative feedback coefficient which is provided as a namelist parameter.
-Unlike heat flux, there is no physical justification for the feedback term in \autoref{eq:sbc_dmp_emp} as
+Unlike heat flux, there is no physical justification for the feedback term in \autoref{eq:SBC_dmp_emp} as
 the atmosphere does not care about ocean surface salinity \citep{madec.delecluse_IWN97}.
 The SSS restoring term should be viewed as a flux correction on freshwater fluxes to
 reduce the uncertainties we have on the observed freshwater budget.
 
-% -------------------------------------------------------------------------------------------------------------
-%        Handling of ice-covered area
-% -------------------------------------------------------------------------------------------------------------
+%% =================================================================================================
 \subsection{Handling of ice-covered area  (\textit{sbcice\_...})}
 \label{subsec:SBC_ice-cover}
@@ -1579 +1729 @@
 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 found in \ngn{namsbc} namelist.
+the value of the \np{nn_ice}{nn\_ice} namelist parameter found in \nam{sbc}{sbc} namelist.
 \begin{description}
-\item[nn{\_}ice = 0]
-  there will never be sea-ice in the computational domain.
+\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 is done for sea-ice.
-\item[nn{\_}ice = 1]
-  sea-ice can exist in the computational domain, but no sea-ice model is used.
+\item [nn\_ice = 1] sea-ice can exist in the computational domain, but no sea-ice model is used.
   An observed ice covered area is read in a file.
   Below this area, the SST is restored to the freezing point and
@@ -1595 +1743 @@
   This prevents deep convection to occur when trying to reach the freezing point
   (and so ice covered area condition) while the SSS is too large.
-  This manner of managing sea-ice area, just by using si IF case,
+  This manner of managing sea-ice area, just by using a IF case,
   is usually referred as the \textit{ice-if} model.
-  It can be found in the \mdl{sbcice{\_}if} module.
-\item[nn{\_}ice = 2 or more]
-  A full sea ice model is used.
+  It can be found in the \mdl{sbcice\_if} module.
+\item [nn\_ice = 2 or more] A full sea ice model is used.
   This model computes the ice-ocean fluxes,
   that are combined with the air-sea fluxes using the ice fraction of each model cell to
-  provide the surface ocean fluxes.
-  Note that the activation of a sea-ice model is is done by defining a CPP key (\key{lim3} or \key{cice}).
-  The activation automatically overwrites the read value of nn{\_}ice to its appropriate value
-  (\ie $2$ for LIM-3 or $3$ for CICE).
+  provide the surface averaged ocean fluxes.
+  Note that the activation of a sea-ice model is done by defining a CPP key (\key{si3} or \key{cice}).
+  The activation automatically overwrites the read value of nn\_ice to its appropriate value
+  (\ie\ $2$ for SI3 or $3$ for CICE).
 \end{description}
 
 % {Description of Ice-ocean interface to be added here or in LIM 2 and 3 doc ?}
-
-\subsection[Interface to CICE (\textit{sbcice\_cice.F90})]
-{Interface to CICE (\protect\mdl{sbcice\_cice})}
+%GS: ocean-ice (SI3) interface is not located in SBC directory anymore, so it should be included in SI3 doc
+
+%% =================================================================================================
+\subsection[Interface to CICE (\textit{sbcice\_cice.F90})]{Interface to CICE (\protect\mdl{sbcice\_cice})}
 \label{subsec:SBC_cice}
 
-It is now possible to couple a regional or global NEMO configuration (without AGRIF)
+It is possible to couple a regional or global \NEMO\ configuration (without AGRIF)
 to the CICE sea-ice model by using \key{cice}.
 The CICE code can be obtained from \href{http://oceans11.lanl.gov/trac/CICE/}{LANL} and
 the additional 'hadgem3' drivers will be required, even with the latest code release.
-Input grid files consistent with those used in NEMO will also be needed,
+Input grid files consistent with those used in \NEMO\ will also be needed,
 and CICE CPP keys \textbf{ORCA\_GRID}, \textbf{CICE\_IN\_NEMO} and \textbf{coupled} should be used
 (seek advice from UKMO if necessary).
-Currently the code is only designed to work when using the CORE forcing option for NEMO
-(with \textit{calc\_strair}\forcode{ = .true.} and \textit{calc\_Tsfc}\forcode{ = .true.} in the CICE name-list),
-or alternatively when NEMO is coupled to the HadGAM3 atmosphere model
-(with \textit{calc\_strair}\forcode{ = .false.} and \textit{calc\_Tsfc}\forcode{ = false}).
-The code is intended to be used with \np{nn\_fsbc} set to 1
+Currently, the code is only designed to work when using the NCAR forcing option for \NEMO\ %GS: still true ?
+(with \textit{calc\_strair}\forcode{=.true.} and \textit{calc\_Tsfc}\forcode{=.true.} in the CICE name-list),
+or alternatively when \NEMO\ is coupled to the HadGAM3 atmosphere model
+(with \textit{calc\_strair}\forcode{=.false.} and \textit{calc\_Tsfc}\forcode{=false}).
+The code is intended to be used with \np{nn_fsbc}{nn\_fsbc} set to 1
 (although coupling ocean and ice less frequently should work,
 it is possible the calculation of some of the ocean-ice fluxes needs to be modified slightly -
 the user should check that results are not significantly different to the standard case).
 
-There are two options for the technical coupling between NEMO and CICE.
+There are two options for the technical coupling between \NEMO\ and CICE.
 The standard version allows complete flexibility for the domain decompositions in the individual models,
 but this is at the expense of global gather and scatter operations in the coupling which
 become very expensive on larger numbers of processors.
-The alternative option (using \key{nemocice\_decomp} for both NEMO and CICE) ensures that
+The alternative option (using \key{nemocice\_decomp} for both \NEMO\ and CICE) ensures that
 the domain decomposition is identical in both models (provided domain parameters are set appropriately,
 and \textit{processor\_shape~=~square-ice} and \textit{distribution\_wght~=~block} in the CICE name-list) and
@@ -1641 +1789 @@
 there is no sea ice.
 
-% -------------------------------------------------------------------------------------------------------------
-%        Freshwater budget control 
-% -------------------------------------------------------------------------------------------------------------
-\subsection[Freshwater budget control (\textit{sbcfwb.F90})]
-{Freshwater budget control (\protect\mdl{sbcfwb})}
+%% =================================================================================================
+\subsection[Freshwater budget control (\textit{sbcfwb.F90})]{Freshwater budget control (\protect\mdl{sbcfwb})}
 \label{subsec:SBC_fwb}
 
-For global ocean simulation it can be useful to introduce a control of the mean sea level in order to
+For global ocean simulation, it can be useful to introduce a control of the mean sea level in order to
 prevent unrealistic drift of the sea surface height due to inaccuracy in the freshwater fluxes.
-In \NEMO, two way of controlling the the freshwater budget. 
+In \NEMO, two way of controlling the freshwater budget are proposed:
+
 \begin{description}
-\item[\np{nn\_fwb}\forcode{ = 0}]
-  no control at all.
+\item [{\np[=0]{nn_fwb}{nn\_fwb}}] no control at all.
   The mean sea level is free to drift, and will certainly do so.
-\item[\np{nn\_fwb}\forcode{ = 1}]
-  global mean \textit{emp} set to zero at each model time step. 
-%Note that with a sea-ice model, this technique only control the mean sea level with linear free surface (\key{vvl} not defined) and no mass flux between ocean and ice (as it is implemented in the current ice-ocean coupling). 
-\item[\np{nn\_fwb}\forcode{ = 2}]
-  freshwater budget is adjusted from the previous year annual mean budget which
+\item [{\np[=1]{nn_fwb}{nn\_fwb}}] global mean \textit{emp} set to zero at each model time step.
+  %GS: comment below still relevant ?
+  %Note that with a sea-ice model, this technique only controls the mean sea level with linear free surface and no mass flux between ocean and ice (as it is implemented in the current ice-ocean coupling).
+\item [{\np[=2]{nn_fwb}{nn\_fwb}}] freshwater budget is adjusted from the previous year annual mean budget which
   is read in the \textit{EMPave\_old.dat} file.
   As the model uses the Boussinesq approximation, the annual mean fresh water budget is simply evaluated from
-  the change in the mean sea level at January the first and saved in the \textit{EMPav.dat} file. 
+  the change in the mean sea level at January the first and saved in the \textit{EMPav.dat} file.
 \end{description}
 
-
-
 % Griffies doc:
-% When running ocean-ice simulations, we are not explicitly representing land processes, 
-% such as rivers, catchment areas, snow accumulation, etc. However, to reduce model drift, 
-% it is important to balance the hydrological cycle in ocean-ice models. 
-% We thus need to prescribe some form of global normalization to the precipitation minus evaporation plus river runoff. 
-% The result of the normalization should be a global integrated zero net water input to the ocean-ice system over 
-% a chosen time scale. 
-%How often the normalization is done is a matter of choice. In mom4p1, we choose to do so at each model time step, 
-% so that there is always a zero net input of water to the ocean-ice system. 
-% Others choose to normalize over an annual cycle, in which case the net imbalance over an annual cycle is used 
-% to alter the subsequent year�s water budget in an attempt to damp the annual water imbalance. 
-% Note that the annual budget approach may be inappropriate with interannually varying precipitation forcing. 
-% When running ocean-ice coupled models, it is incorrect to include the water transport between the ocean 
-% and ice models when aiming to balance the hydrological cycle. 
-% The reason is that it is the sum of the water in the ocean plus ice that should be balanced when running ocean-ice models, 
-% not the water in any one sub-component. As an extreme example to illustrate the issue, 
-% consider an ocean-ice model with zero initial sea ice. As the ocean-ice model spins up, 
-% there should be a net accumulation of water in the growing sea ice, and thus a net loss of water from the ocean. 
-% The total water contained in the ocean plus ice system is constant, but there is an exchange of water between 
-% the subcomponents. This exchange should not be part of the normalization used to balance the hydrological cycle 
-% in ocean-ice models. 
-
-\biblio
-
-\pindex
+% When running ocean-ice simulations, we are not explicitly representing land processes,
+% such as rivers, catchment areas, snow accumulation, etc. However, to reduce model drift,
+% it is important to balance the hydrological cycle in ocean-ice models.
+% We thus need to prescribe some form of global normalization to the precipitation minus evaporation plus river runoff.
+% The result of the normalization should be a global integrated zero net water input to the ocean-ice system over
+% a chosen time scale.
+% How often the normalization is done is a matter of choice. In mom4p1, we choose to do so at each model time step,
+% so that there is always a zero net input of water to the ocean-ice system.
+% Others choose to normalize over an annual cycle, in which case the net imbalance over an annual cycle is used
+% to alter the subsequent year�s water budget in an attempt to damp the annual water imbalance.
+% Note that the annual budget approach may be inappropriate with interannually varying precipitation forcing.
+% When running ocean-ice coupled models, it is incorrect to include the water transport between the ocean
+% and ice models when aiming to balance the hydrological cycle.
+% The reason is that it is the sum of the water in the ocean plus ice that should be balanced when running ocean-ice models,
+% not the water in any one sub-component. As an extreme example to illustrate the issue,
+% consider an ocean-ice model with zero initial sea ice. As the ocean-ice model spins up,
+% there should be a net accumulation of water in the growing sea ice, and thus a net loss of water from the ocean.
+% The total water contained in the ocean plus ice system is constant, but there is an exchange of water between
+% the subcomponents. This exchange should not be part of the normalization used to balance the hydrological cycle
+% in ocean-ice models.
+
+\subinc{\input{../../global/epilogue}}
 
 \end{document}

@@ -1 @@
-*.aux
-*.bbl
-*.blg
-*.dvi
-*.fdb*
-*.fls
-*.idx
+*.ind
 *.ilg
-*.ind
-*.log
-*.maf
-*.mtc*
-*.out
-*.pdf
-*.toc
-_minted-*