Index: /branches/2015/nemo_v3_6_STABLE/DOC/LaTeX2HTML.sh
===================================================================
--- /branches/2015/nemo_v3_6_STABLE/DOC/LaTeX2HTML.sh	(revision 6992)
+++ /branches/2015/nemo_v3_6_STABLE/DOC/LaTeX2HTML.sh	(revision 6992)
@@ -0,0 +1,11 @@
+#!/bin/bash
+
+sed -i -e 's#\\documentclass#%\\documentclass#' -e '/{document}/ s/^/%/' TexFiles/Chapters/*.tex
+sed -i    '30,${s#\\subfile{#\\include{#g}'                                    NEMO_book.tex
+latex NEMO_book && makeindex NEMO_book && bibtex NEMO_book
+mkdir -p html
+latex2html -local_icons -no_footnode -split 4 -link 2 -dir html $*
+sed -i -e 's#%\\documentclass#\\documentclass#' -e '/{document}/ s/^%//' TexFiles/Chapters/*.tex
+sed -i    '30,${s#\\include{#\\subfile{#g}'                                    NEMO_book.tex
+
+exit 0
Index: /branches/2015/nemo_v3_6_STABLE/DOC/NEMO_book.tex
===================================================================
--- /branches/2015/nemo_v3_6_STABLE/DOC/NEMO_book.tex	(revision 6991)
+++ /branches/2015/nemo_v3_6_STABLE/DOC/NEMO_book.tex	(revision 6992)
@@ -4,246 +4,18 @@
 % (C) Xavier Perseguers 2002 - xavier.perseguers@epfl.ch
 
-\documentclass[a4paper,11pt]{book}
-%\documentclass[a4paper,11pt,makeidx]{book} <== may need this to generate index
+% ================================================================
+% PREAMBLE
+% ================================================================
 
-%  makeindex NEMO_book     <== to regenerate the index
-%  bibtex         NEMO_book	<== to generate  the bibliography
+\include{TexFiles/Preamble}
 
 % ================================================================
-% HEADERS DEFINITION
+% TOP MATTER
 % ================================================================
 
-\usepackage[french]{babel}
-%\usepackage{color}
-\usepackage{xcolor}
-%\usepackage{graphics}				% allows insertion of pictures
-\usepackage{graphicx}				% allows insertion of pictures
-\usepackage[capbesideposition={top,center}]{floatrow} % allows captions
-\floatsetup[table]{style=plaintop}                                   % beside pictures
-\usepackage[margin=10pt,font={small},labelsep=colon,labelfont={bf}]{caption} % Gives small font for captions
-\usepackage{enumitem}                          % allows non-bold description items
-\usepackage{longtable}                         % allows multipage tables
-%\usepackage{colortbl}                           % gives coloured panels behind table columns
-
-%hyperref
-\usepackage[					%
-  pdftitle={NEMO ocean engine},	%
-  pdfauthor={Gurvan Madec},		% pdfsubject={The preprint document class
-                           				% elsart},% pdfkeywords={diapycnal diffusion,numerical mixing,z-level models},%
-  pdfstartview=FitH,				%
-  bookmarks=true,				%
-  bookmarksopen=true,			%
-  breaklinks=true,				%
-  colorlinks=true,				%
-  linkcolor=blue,anchorcolor=blue,	%
-  citecolor=blue,filecolor=blue,		%
- menucolor=blue,                   	%
-  urlcolor=blue]{hyperref}
-%  usage of exteranl hyperlink :  \href{mailto:my_address@wikibooks.org}{my\_address@wikibooks.org}
-%                                                 \url{http://www.wikibooks.org}
-%                                     or         \href{http://www.wikibooks.org}{wikibooks home}
-
-
-
-%%%% page styles etc................
-\usepackage{fancyhdr}
-\pagestyle{fancy}
-% with this we ensure that the chapter and section
-% headings are in lowercase.
-\renewcommand{\chaptermark}[1]{\markboth{#1}{}}
-\renewcommand{\sectionmark}[1]{\markright{\thesection.\ #1}}
-\fancyhf{}             % delete current setting for header and footer
-\fancyhead[LE,RO]{\bfseries\thepage}
-\fancyhead[LO]{\bfseries\hspace{-0em}\rightmark}
-\fancyhead[RE]{\bfseries\leftmark}
-\renewcommand{\headrulewidth}{0.5pt}
-\renewcommand{\footrulewidth}{0pt}
-\addtolength{\headheight}{2.6pt}   % make space for the rule
-%\addtolength{\headheight}{1.6pt}   % make space for the rule
-\fancypagestyle{plain}{
-  \fancyhead{}         % get rid of headers on plain pages
-  \renewcommand{\headrulewidth}{0pt}  % and the line
-}
-
-
-%%%%  Section number in Margin.......
-% typeset the number of each section in the left margin, with the start of each instance of
-% sectional heading text aligned with the left hand edge of  the body text.
-\makeatletter
-\def\@seccntformat#1{\protect\makebox[0pt][r]{\csname the#1\endcsname\quad}}
-\makeatother
-
-% Leave blank pages completely empty, w/o header
-\makeatletter
-\def\cleardoublepage{\clearpage\if@twoside \ifodd\c@page\else
-  \hbox{}
-  \vspace*{\fill}
-  \vspace{\fill}
-  \thispagestyle{empty}
-  \newpage
-  \if@twocolumn\hbox{}\newpage\fi\fi\fi}
-\makeatother
-
-%%%% define the chapter  style ................
-\usepackage{minitoc}				%In French : \usepackage[french]{minitoc}
-%\usepackage{mtcoff}				% invalidate the use of minitocs
-\usepackage{fancybox}
-
-\makeatletter
-\def\LigneVerticale{\vrule height 5cm depth 2cm\hspace{0.1cm}\relax}
-\def\LignesVerticales{%
-  \let\LV\LigneVerticale\LV\LV\LV\LV\LV\LV\LV\LV\LV\LV}
-\def\GrosCarreAvecUnChiffre#1{%
-  \rlap{\vrule height 0.8cm width 1cm depth 0.2cm}%
- \rlap{\hbox to 1cm{\hss\mbox{\color{white} #1}\hss}}%
-  \vrule height 0pt width 1cm depth 0pt}
-\def\GrosCarreAvecTroisChiffre#1{%
-  \rlap{\vrule height 0.8cm width 1.6cm depth 0.2cm}%
- \rlap{\hbox to 1.5cm{\hss\mbox{\color{white} #1}\hss}}%
-  \vrule height 0pt width 1cm depth 0pt}
-
-\def\@makechapterhead#1{\hbox{%
-   \huge
-    \LignesVerticales
-    \hspace{-0.5cm}%
-    \GrosCarreAvecUnChiffre{\thechapter}
-    \hspace{0.2cm}\hbox{#1}%
-%    \GrosCarreAvecTroisChiffre{\thechapter}
-%    \hspace{1cm}\hbox{#1}%
-%}\par\vskip 2cm}
-}\par\vskip 1cm}
-\def\@makeschapterhead#1{\hbox{%
-   \huge
-    \LignesVerticales
-    %\hspace{0.5cm}%
-    \hbox{#1}%
-}\par\vskip 2cm}
-\makeatother
-
-%\def\thechapter{\Roman{chapter}}   	% chapter number to be Roman
-
-
-%%%%           Mathematics...............
-%\documentclass{amsart}
-\usepackage{xspace}                              % helpd ensure correct spacing after macros
-\usepackage{latexsym}
-\usepackage{amssymb}
-\usepackage{amsmath}
-\allowdisplaybreaks[1]				% allow page breaks in the middle of equations
-\usepackage{./TexFiles/math_abbrev}    % use maths shortcuts
-
-
-\usepackage{times}				 	 % use times font for text
-%\usepackage{mathtime}                          % font for illustrator to work (belleek fonts )
-%\usepackage[latin1]{inputenc}                % allows some unicode removed (agn)
-
-
-%%% essai commande
-\newcommand{\nl} [1] {\texttt{\small {\textcolor{blue}{#1}} } }
-\newcommand{\nlv} [1] {\texttt{\footnotesize#1}\xspace}
-\newcommand{\smnlv} [1] {\texttt{\scriptsize#1}\xspace}
-
-%%%% namelist & code display................................
-\usepackage{alltt}  		%%  alltt for namelist
-\usepackage{verbatim}  	%%  alltt for namelist
-% namelists
-\newcommand{\namdisplay} [1] {
-\begin{alltt}
-{\tiny \verbatiminput{./TexFiles/Namelist/#1}}
-\end{alltt}
-  \vspace{-10pt}
-}
-% code display
-%\newcommand{\codedisplay} [1] { \begin{alltt} {\tiny  {\begin{verbatim} {#1}} \end{verbatim} }  \end{alltt}   }
-
-
-
-%%%% commands for working with text................................
-% command to "comment out" portions of text ({} argument) or not ({#1} argument)
-\newcommand{\amtcomment}[1]{}   	% command to "commented out" portions of text or not (#1 in argument)
-\newcommand{\sgacomment}[1]{}   	% command to "commented out" portions of
-\newcommand{\gmcomment}[1]{}   	% command to "commented out" portions of
-%                                    				% text that span line breaks
-%Red (NR) or Yellow(WARN)
-%\newcommand{\NR} {\colorbox{red}{#1}}
-%\newcommand{\WARN} {{ \colorbox{yellow}{#1}} }
-
-
-
-%%% index commands......................
-\usepackage{makeidx}
-%\usepackage{showidx}				% show the index entry
-
-\newcommand{\mdl} [1] {\textit{#1.F90}\index{Modules!#1}}			%module (mdl)
-\newcommand{\rou} [1] {\textit{#1}\index{Routines!#1}}				%module (routine)
-\newcommand{\hf} [1] {\textit{#1.h90}\index{h90 file!#1}}				%module (h90 files)
-\newcommand{\ngn} [1] {\textit{#1}\index{Namelist Group Name!#1}}		%namelist name (nampar)
-\newcommand{\np} [1] {\textit{#1}\index{Namelist variables!#1}}		       %namelist variable
-\newcommand{\jp} [1] {\textit{#1}\index{Model parameters!#1}}			%model parameter (jp)
-\newcommand{\pp} [1] {\textit{#1}\index{Model parameters!#1}}		 	%namelist parameter (pp)
-\newcommand{\ifile} [1] {\textit{#1.nc}\index{Input NetCDF files!#1.nc}}	%input NetCDF files (.nc)
-\newcommand{\key} [1] {\textbf{key\_#1}\index{CPP keys!key\_#1}}	%key_cpp (key)
-\newcommand{\NEMO} {\textit{NEMO}\xspace}						%NEMO (nemo)
-
-%%%%   Bibliography   .............
-\usepackage[nottoc, notlof, notlot]{tocbibind}
-\usepackage[square, comma]{natbib}
-\bibpunct{[}{]}{,}{a}{}{;}                           %suppress "," after "et al."
-\providecommand{\bibfont}{\small}
-
+\include{TexFiles/Top_Matter}
 
 % ================================================================
-% FRONT PAGE
-% ================================================================
-
-%\usepackage{pstricks}
-\title{
-%\psset{unit=1.1in,linewidth=4pt} 	%parameters of the units for pstricks
-% \rput(0,2){ \includegraphics[width=1.1\textwidth]{./TexFiles/Figures/logo_ALL.pdf}             } \\
-% \vspace{0.1cm}
-\vspace{-6.0cm}
-\includegraphics[width=1.1\textwidth]{./TexFiles/Figures/logo_ALL.pdf}\\
-\vspace{5.1cm}
-\includegraphics[width=0.9\textwidth]{./TexFiles/Figures/NEMO_logo_Black.pdf} \\
-\vspace{1.4cm}
-\rule{345pt}{1.5pt} \\
-\vspace{0.45cm}
-{\Huge NEMO ocean engine}
-\rule{345pt}{1.5pt} \\
- }
-%{ -- Draft --}   }
-%\date{\today}
-\date{
-January 2016  \\
-{\small  -- version 3.6 stable --} \\
-~  \\
-\textit{\small Note du P\^ole de mod\'{e}lisation de l'Institut Pierre-Simon Laplace No 27 }\\
-\vspace{0.45cm}
-{ ISSN No 1288-1619.}
-}
-
-
-\author{
-\Large Gurvan Madec, and the NEMO team  \\
- \texttt{\small gurvan.madec@locean-ipsl.umpc.fr} \\
- \texttt{\small nemo\_st@locean-ipsl.umpc.fr} \\
-%{\small Laboratoire d'Oc\'{e}anographie  et du Climat: Exp\'{e}rimentation et Approches Num\'{e}riques }
-}
-
-\dominitoc
-\makeindex  		%type this first :     makeindex -s NEMO.ist NEMO_book.idx
-
-% ================================================================
-%      Include ONLY order
-% ================================================================
-
-%\includeonly{./TexFiles/Chapters/Chap_MISC}
-%\includeonly{./TexFiles/Chapters/Chap_ZDF}
-%\includeonly{./TexFiles/Chapters/Chap_STP,./TexFiles/Chapters/Chap_SBC,./TexFiles/Chapters/Chap_TRA}
-%\includeonly{./TexFiles/Chapters/Chap_LBC,./TexFiles/Chapters/Chap_MISC}
-%\includeonly{./TexFiles/Chapters/Chap_Model_Basics}
-%\includeonly{./TexFiles/Chapters/Annex_A,./TexFiles/Chapters/Annex_B,./TexFiles/Chapters/Annex_C,./TexFiles/Chapters/Annex_D}
-
-% ================================================================
+% DOCUMENT
 % ================================================================
 
@@ -264,5 +36,5 @@
 % ================================================================
 
-\include{./TexFiles/Chapters/Abstracts_Foreword}
+\subfile{TexFiles/Chapters/Abstracts_Foreword}
 
 % ================================================================
@@ -270,5 +42,5 @@
 % ================================================================
 
-\include{./TexFiles/Chapters/Introduction}
+\subfile{TexFiles/Chapters/Introduction}
 
 % ================================================================
@@ -276,33 +48,33 @@
 % ================================================================
 
-\include{./TexFiles/Chapters/Chap_Model_Basics}
+\subfile{TexFiles/Chapters/Chap_Model_Basics}
 
-\include{./TexFiles/Chapters/Chap_STP}			% Time discretisation (time stepping strategy)
+\subfile{TexFiles/Chapters/Chap_STP}			% Time discretisation (time stepping strategy)
 
-\include{./TexFiles/Chapters/Chap_DOM}			% Space discretisation
+\subfile{TexFiles/Chapters/Chap_DOM}			% Space discretisation
 
-\include{./TexFiles/Chapters/Chap_TRA}			% Tracer advection/diffusion equation
+\subfile{TexFiles/Chapters/Chap_TRA}			% Tracer advection/diffusion equation
 
-\include{./TexFiles/Chapters/Chap_DYN}			% Dynamics : momentum equation
+\subfile{TexFiles/Chapters/Chap_DYN}			% Dynamics : momentum equation
 
-\include{./TexFiles/Chapters/Chap_SBC}			% Surface Boundary Conditions
+\subfile{TexFiles/Chapters/Chap_SBC}			% Surface Boundary Conditions
 
-\include{./TexFiles/Chapters/Chap_LBC}			% Lateral Boundary Conditions
+\subfile{TexFiles/Chapters/Chap_LBC}			% Lateral Boundary Conditions
 
-\include{./TexFiles/Chapters/Chap_LDF}			% Lateral diffusion
+\subfile{TexFiles/Chapters/Chap_LDF}			% Lateral diffusion
 
-\include{./TexFiles/Chapters/Chap_ZDF}			% Vertical diffusion
+\subfile{TexFiles/Chapters/Chap_ZDF}			% Vertical diffusion
 
-\include{./TexFiles/Chapters/Chap_DIA}			% Outputs and Diagnostics
+\subfile{TexFiles/Chapters/Chap_DIA}			% Outputs and Diagnostics
 
-\include{./TexFiles/Chapters/Chap_OBS}          % Observation operator
+\subfile{TexFiles/Chapters/Chap_OBS}                    % Observation operator
 
-\include{./TexFiles/Chapters/Chap_ASM}          % Assimilation increments
+\subfile{TexFiles/Chapters/Chap_ASM}                    % Assimilation increments
 
-\include{./TexFiles/Chapters/Chap_STO}          % Stochastic param.
+\subfile{TexFiles/Chapters/Chap_STO}                    % Stochastic param.
 
-\include{./TexFiles/Chapters/Chap_MISC}			% Miscellaneous topics
+\subfile{TexFiles/Chapters/Chap_MISC}			% Miscellaneous topics
 
-\include{./TexFiles/Chapters/Chap_CFG}			% Predefined configurations
+\subfile{TexFiles/Chapters/Chap_CFG}			% Predefined configurations
 
 % ================================================================
@@ -312,13 +84,13 @@
 \appendix
 
-%\include{./TexFiles/Chapters/Chap_Conservation}
-\include{./TexFiles/Chapters/Annex_A}			% generalised vertical coordinate
-\include{./TexFiles/Chapters/Annex_B}			% diffusive operator
-\include{./TexFiles/Chapters/Annex_C}			% Discrete invariants of the eqs.
-\include{./TexFiles/Chapters/Annex_ISO}	                  % Isoneutral diffusion using triads
-\include{./TexFiles/Chapters/Annex_D}			% Coding rules
-%\include{./TexFiles/Chapters/Annex_E}	                  % Notes on some on going staff (no included in the DOC)
-%\include{./TexFiles/Chapters/Annex_Fox-Kemper}   % Notes on Fox-Kemper (no included in the DOC)
-%\include{./TexFiles/Chapters/Annex_EVP}        	% Notes on EVP (no included in the DOC)
+%\subfile{TexFiles/Chapters/Chap_Conservation}
+\subfile{TexFiles/Chapters/Annex_A}			% generalised vertical coordinate
+\subfile{TexFiles/Chapters/Annex_B}			% diffusive operator
+\subfile{TexFiles/Chapters/Annex_C}			% Discrete invariants of the eqs.
+\subfile{TexFiles/Chapters/Annex_ISO}	                  % Isoneutral diffusion using triads
+\subfile{TexFiles/Chapters/Annex_D}			% Coding rules
+%\subfile{TexFiles/Chapters/Annex_E}	                  % Notes on some on going staff (no included in the DOC)
+%\subfile{TexFiles/Chapters/Annex_Fox-Kemper}   % Notes on Fox-Kemper (no included in the DOC)
+%\subfile{TexFiles/Chapters/Annex_EVP}        	% Notes on EVP (no included in the DOC)
 
 % ================================================================
@@ -334,6 +106,6 @@
 
 %%\bibliographystyle{plainat}
-\bibliographystyle{./TexFiles/ametsoc}		% AMS biblio style (JPO)
-\bibliography{./TexFiles/Biblio/Biblio}
+\bibliographystyle{TexFiles/Styles/ametsoc}		% AMS biblio style (JPO)
+\bibliography{TexFiles/Bibliography/Biblio}
 
 % ================================================================
Index: /branches/2015/nemo_v3_6_STABLE/DOC/NEMO_coding.conv.tex
===================================================================
--- /branches/2015/nemo_v3_6_STABLE/DOC/NEMO_coding.conv.tex	(revision 6991)
+++ /branches/2015/nemo_v3_6_STABLE/DOC/NEMO_coding.conv.tex	(revision 6992)
@@ -7,5 +7,5 @@
 \usepackage{framed} 
 \usepackage{makeidx} 
-
+\graphicspath{{Figures/}}
 
 %%%%%%%
@@ -31,5 +31,5 @@
 
 \title{ 
-\includegraphics[width=0.3\textwidth]{./TexFiles/Figures/NEMO_logo_Black.pdf} \\
+\includegraphics[width=0.3\textwidth]{NEMO_logo_Black} \\
 \vspace{1.0cm}
 \rule{345pt}{1.5pt} \\
Index: /branches/2015/nemo_v3_6_STABLE/DOC/Namelists/nam_asminc
===================================================================
--- /branches/2015/nemo_v3_6_STABLE/DOC/Namelists/nam_asminc	(revision 6992)
+++ /branches/2015/nemo_v3_6_STABLE/DOC/Namelists/nam_asminc	(revision 6992)
@@ -0,0 +1,18 @@
+!-----------------------------------------------------------------------
+&nam_asminc   !   assimilation increments                               ('key_asminc')
+!-----------------------------------------------------------------------
+    ln_bkgwri = .false.    !  Logical switch for writing out background state
+    ln_trainc = .false.    !  Logical switch for applying tracer increments
+    ln_dyninc = .false.    !  Logical switch for applying velocity increments
+    ln_sshinc = .false.    !  Logical switch for applying SSH increments
+    ln_asmdin = .false.    !  Logical switch for Direct Initialization (DI)
+    ln_asmiau = .false.    !  Logical switch for Incremental Analysis Updating (IAU)
+    nitbkg    = 0          !  Timestep of background in [0,nitend-nit000-1]
+    nitdin    = 0          !  Timestep of background for DI in [0,nitend-nit000-1]
+    nitiaustr = 1          !  Timestep of start of IAU interval in [0,nitend-nit000-1]
+    nitiaufin = 15         !  Timestep of end of IAU interval in [0,nitend-nit000-1]
+    niaufn    = 0          !  Type of IAU weighting function
+    ln_salfix = .false.    !  Logical switch for ensuring that the sa > salfixmin
+    salfixmin = -9999      !  Minimum salinity after applying the increments
+    nn_divdmp = 0          !  Number of iterations of divergence damping operator
+/
Index: /branches/2015/nemo_v3_6_STABLE/DOC/Namelists/nam_diaharm
===================================================================
--- /branches/2015/nemo_v3_6_STABLE/DOC/Namelists/nam_diaharm	(revision 6992)
+++ /branches/2015/nemo_v3_6_STABLE/DOC/Namelists/nam_diaharm	(revision 6992)
@@ -0,0 +1,9 @@
+!-----------------------------------------------------------------------
+&nam_diaharm   !   Harmonic analysis of tidal constituents ('key_diaharm')
+!-----------------------------------------------------------------------
+    nit000_han = 1         ! First time step used for harmonic analysis
+    nitend_han = 75        ! Last time step used for harmonic analysis
+    nstep_han  = 15        ! Time step frequency for harmonic analysis
+    tname(1)   = 'M2'      ! Name of tidal constituents
+    tname(2)   = 'K1'
+/
Index: /branches/2015/nemo_v3_6_STABLE/DOC/Namelists/nam_dmp_create
===================================================================
--- /branches/2015/nemo_v3_6_STABLE/DOC/Namelists/nam_dmp_create	(revision 6992)
+++ /branches/2015/nemo_v3_6_STABLE/DOC/Namelists/nam_dmp_create	(revision 6992)
@@ -0,0 +1,23 @@
+&nam_dmp_create
+    cp_cfg = 'orca'            ! Name of model grid (orca and C1D have special options 
+                               ! otherwise ignored)
+    cp_cfz = 'antarctic'       ! Name of zoom configuration (arctic and antarctic have 
+                               ! some special treatment if lzoom=.true.)
+    jp_cfg = 2                 ! Resolution of the model (used for med_red_seas damping)
+    lzoom = .false.            ! Zoom configuration or not
+    ln_full_field = .false.    ! Calculate coefficient over whole of domain
+    ln_med_red_seas = .true.   ! Damping in Med/Red Seas 
+                               ! (or local modifications here if ln_full_field=.true.)
+    ln_old_31_lev_code = .true.   ! Replicate behaviour of old online code for 31 level model 
+                                  ! (Med/Red seas damping based on level number instead of depth)
+    ln_coast = .true.          ! Reduce near to coastlines
+    ln_zero_top_layer = .true. ! No damping in top layer
+    ln_custom = .false.        ! Call "custom" module to apply user modifications to the 
+                               ! damping coefficient field
+    pn_surf = 0.25             ! Surface Relaxation timescale (days)
+    pn_bot = 0.25              ! Bottom relaxation timescale (days)
+    pn_dep = 1000              ! Transition depth from upper to deep ocean
+    nn_hdmp = 10               ! Damp poleward of this latitude (smooth transition up to maximum damping)
+    jperio = 2                 ! Lateral boundary condition (as specified in namelist_cfg for model run).
+/
+
Index: /branches/2015/nemo_v3_6_STABLE/DOC/Namelists/nam_tide
===================================================================
--- /branches/2015/nemo_v3_6_STABLE/DOC/Namelists/nam_tide	(revision 6992)
+++ /branches/2015/nemo_v3_6_STABLE/DOC/Namelists/nam_tide	(revision 6992)
@@ -0,0 +1,8 @@
+!-----------------------------------------------------------------------
+&nam_tide      !   tide parameters (#ifdef key_tide)
+!-----------------------------------------------------------------------
+   ln_tide_pot   = .true.   !  use tidal potential forcing
+   ln_tide_ramp  = .false.  !
+   rdttideramp   =    0.    !
+   clname(1)     = 'DUMMY'  !  name of constituent - all tidal components must be set in namelist_cfg
+/
Index: /branches/2015/nemo_v3_6_STABLE/DOC/Namelists/nam_vvl
===================================================================
--- /branches/2015/nemo_v3_6_STABLE/DOC/Namelists/nam_vvl	(revision 6992)
+++ /branches/2015/nemo_v3_6_STABLE/DOC/Namelists/nam_vvl	(revision 6992)
@@ -0,0 +1,14 @@
+!-----------------------------------------------------------------------
+&nam_vvl    !   vertical coordinate options
+!-----------------------------------------------------------------------
+   ln_vvl_zstar  = .true.           !  zstar vertical coordinate
+   ln_vvl_ztilde = .false.          !  ztilde vertical coordinate: only high frequency variations
+   ln_vvl_layer  = .false.          !  full layer vertical coordinate
+   ln_vvl_ztilde_as_zstar = .false. !  ztilde vertical coordinate emulating zstar
+   ln_vvl_zstar_at_eqtor = .false.  !  ztilde near the equator
+   rn_ahe3       = 0.0e0            !  thickness diffusion coefficient
+   rn_rst_e3t    = 30.e0            !  ztilde to zstar restoration timescale [days]
+   rn_lf_cutoff  = 5.0e0            !  cutoff frequency for low-pass filter  [days]
+   rn_zdef_max   = 0.9e0            !  maximum fractional e3t deformation
+   ln_vvl_dbg    = .true.           !  debug prints    (T/F)
+/
Index: /branches/2015/nemo_v3_6_STABLE/DOC/Namelists/namagrif
===================================================================
--- /branches/2015/nemo_v3_6_STABLE/DOC/Namelists/namagrif	(revision 6992)
+++ /branches/2015/nemo_v3_6_STABLE/DOC/Namelists/namagrif	(revision 6992)
@@ -0,0 +1,8 @@
+!-----------------------------------------------------------------------
+&namagrif      !  AGRIF zoom                                            ("key_agrif")
+!-----------------------------------------------------------------------
+   nn_cln_update =    3    !  baroclinic update frequency
+   ln_spc_dyn    = .true.  !  use 0 as special value for dynamics
+   rn_sponge_tra = 2880.   !  coefficient for tracer   sponge layer [m2/s]
+   rn_sponge_dyn = 2880.   !  coefficient for dynamics sponge layer [m2/s]
+/
Index: /branches/2015/nemo_v3_6_STABLE/DOC/Namelists/nambbc
===================================================================
--- /branches/2015/nemo_v3_6_STABLE/DOC/Namelists/nambbc	(revision 6992)
+++ /branches/2015/nemo_v3_6_STABLE/DOC/Namelists/nambbc	(revision 6992)
@@ -0,0 +1,16 @@
+!-----------------------------------------------------------------------
+&nambbc        !   bottom temperature boundary condition
+!-----------------------------------------------------------------------
+!              !                              !  (if <0  months)  !  
+!              !  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      !
+   sn_qgh      ='geothermal_heating.nc',  -12.  , 'heatflow'      ,   .false.      , .true.  , 'yearly'  , ''       , ''       , ''
+   !
+   cn_dir      = './'      !  root directory for the location of the runoff files
+   ln_trabbc   = .true.    !  Apply a geothermal heating at the ocean bottom
+   nn_geoflx   =    2      !  geothermal heat flux: = 0 no flux
+                           !     = 1 constant flux
+                           !     = 2 variable flux (read in geothermal_heating.nc in mW/m2)
+   rn_geoflx_cst = 86.4e-3 !  Constant value of geothermal heat flux [W/m2]
+
+/
Index: /branches/2015/nemo_v3_6_STABLE/DOC/Namelists/nambbl
===================================================================
--- /branches/2015/nemo_v3_6_STABLE/DOC/Namelists/nambbl	(revision 6992)
+++ /branches/2015/nemo_v3_6_STABLE/DOC/Namelists/nambbl	(revision 6992)
@@ -0,0 +1,8 @@
+!-----------------------------------------------------------------------
+&nambbl        !   bottom boundary layer scheme
+!-----------------------------------------------------------------------
+   nn_bbl_ldf  =  1      !  diffusive bbl (=1)   or not (=0)
+   nn_bbl_adv  =  0      !  advective bbl (=1/2) or not (=0)
+   rn_ahtbbl   =  1000.  !  lateral mixing coefficient in the bbl  [m2/s]
+   rn_gambbl   =  10.    !  advective bbl coefficient                 [s]
+/
Index: /branches/2015/nemo_v3_6_STABLE/DOC/Namelists/nambdy
===================================================================
--- /branches/2015/nemo_v3_6_STABLE/DOC/Namelists/nambdy	(revision 6992)
+++ /branches/2015/nemo_v3_6_STABLE/DOC/Namelists/nambdy	(revision 6992)
@@ -0,0 +1,34 @@
+!-----------------------------------------------------------------------
+&nambdy        !  unstructured open boundaries                          ("key_bdy")
+!-----------------------------------------------------------------------
+    nb_bdy         = 0                    !  number of open boundary sets
+    ln_coords_file = .true.               !  =T : read bdy coordinates from file
+    cn_coords_file = 'coordinates.bdy.nc' !  bdy coordinates files
+    ln_mask_file   = .false.              !  =T : read mask from file
+    cn_mask_file   = ''                   !  name of mask file (if ln_mask_file=.TRUE.)
+    cn_dyn2d       = 'none'               !
+    nn_dyn2d_dta   =  0                   !  = 0, bdy data are equal to the initial state
+                                          !  = 1, bdy data are read in 'bdydata   .nc' files
+                                          !  = 2, use tidal harmonic forcing data from files
+                                          !  = 3, use external data AND tidal harmonic forcing
+    cn_dyn3d      =  'none'               !
+    nn_dyn3d_dta  =  0                    !  = 0, bdy data are equal to the initial state
+                                          !  = 1, bdy data are read in 'bdydata   .nc' files
+    cn_tra        =  'none'               !
+    nn_tra_dta    =  0                    !  = 0, bdy data are equal to the initial state
+                                          !  = 1, bdy data are read in 'bdydata   .nc' files
+    cn_ice_lim      =  'none'             !
+    nn_ice_lim_dta  =  0                  !  = 0, bdy data are equal to the initial state
+                                          !  = 1, bdy data are read in 'bdydata   .nc' files
+    rn_ice_tem      = 270.                !  lim3 only: arbitrary temperature of incoming sea ice
+    rn_ice_sal      = 10.                 !  lim3 only:      --   salinity           --
+    rn_ice_age      = 30.                 !  lim3 only:      --   age                --
+
+    ln_tra_dmp    =.false.                !  open boudaries conditions for tracers
+    ln_dyn3d_dmp  =.false.                !  open boundary condition for baroclinic velocities
+    rn_time_dmp   =  1.                   ! Damping time scale in days
+    rn_time_dmp_out =  1.                 ! Outflow damping time scale
+    nn_rimwidth   = 10                    !  width of the relaxation zone
+    ln_vol        = .false.               !  total volume correction (see nn_volctl parameter)
+    nn_volctl     = 1                     !  = 0, the total water flux across open boundaries is zero
+/
Index: /branches/2015/nemo_v3_6_STABLE/DOC/Namelists/nambdy_dta
===================================================================
--- /branches/2015/nemo_v3_6_STABLE/DOC/Namelists/nambdy_dta	(revision 6992)
+++ /branches/2015/nemo_v3_6_STABLE/DOC/Namelists/nambdy_dta	(revision 6992)
@@ -0,0 +1,23 @@
+!-----------------------------------------------------------------------
+&nambdy_dta      !  open boundaries - external data           ("key_bdy")
+!-----------------------------------------------------------------------
+!              !  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      !
+   bn_ssh =     'amm12_bdyT_u2d' ,         24        , 'sossheig' ,     .true.     , .false. ,  'daily'  ,    ''    ,   ''     , ''
+   bn_u2d =     'amm12_bdyU_u2d' ,         24        , 'vobtcrtx' ,     .true.     , .false. ,  'daily'  ,    ''    ,   ''     , ''
+   bn_v2d =     'amm12_bdyV_u2d' ,         24        , 'vobtcrty' ,     .true.     , .false. ,  'daily'  ,    ''    ,   ''     , ''
+   bn_u3d  =    'amm12_bdyU_u3d' ,         24        , 'vozocrtx' ,     .true.     , .false. ,  'daily'  ,    ''    ,   ''     , ''
+   bn_v3d  =    'amm12_bdyV_u3d' ,         24        , 'vomecrty' ,     .true.     , .false. ,  'daily'  ,    ''    ,   ''     , ''
+   bn_tem  =    'amm12_bdyT_tra' ,         24        , 'votemper' ,     .true.     , .false. ,  'daily'  ,    ''    ,   ''     , ''
+   bn_sal  =    'amm12_bdyT_tra' ,         24        , 'vosaline' ,     .true.     , .false. ,  'daily'  ,    ''    ,   ''     , ''
+! for lim2
+!   bn_frld  =    'amm12_bdyT_ice' ,         24        , 'ileadfra' ,     .true.     , .false. ,  'daily'  ,    ''    ,   ''     , ''
+!   bn_hicif =    'amm12_bdyT_ice' ,         24        , 'iicethic' ,     .true.     , .false. ,  'daily'  ,    ''    ,   ''     , ''
+!   bn_hsnif =    'amm12_bdyT_ice' ,         24        , 'isnowthi' ,     .true.     , .false. ,  'daily'  ,    ''    ,   ''     , ''
+! for lim3
+!   bn_a_i  =    'amm12_bdyT_ice' ,         24        , 'ileadfra' ,     .true.     , .false. ,  'daily'  ,    ''    ,   ''     , ''
+!   bn_ht_i =    'amm12_bdyT_ice' ,         24        , 'iicethic' ,     .true.     , .false. ,  'daily'  ,    ''    ,   ''     , ''
+!   bn_ht_s =    'amm12_bdyT_ice' ,         24        , 'isnowthi' ,     .true.     , .false. ,  'daily'  ,    ''    ,   ''     , ''
+   cn_dir  =    'bdydta/'
+   ln_full_vel = .false.
+/
Index: /branches/2015/nemo_v3_6_STABLE/DOC/Namelists/nambdy_tide
===================================================================
--- /branches/2015/nemo_v3_6_STABLE/DOC/Namelists/nambdy_tide	(revision 6992)
+++ /branches/2015/nemo_v3_6_STABLE/DOC/Namelists/nambdy_tide	(revision 6992)
@@ -0,0 +1,7 @@
+!-----------------------------------------------------------------------
+&nambdy_tide     ! tidal forcing at open boundaries
+!-----------------------------------------------------------------------
+   filtide          = 'bdydta/amm12_bdytide_'         !  file name root of tidal forcing files
+   ln_bdytide_2ddta = .false.
+   ln_bdytide_conj  = .false.
+/
Index: /branches/2015/nemo_v3_6_STABLE/DOC/Namelists/namberg
===================================================================
--- /branches/2015/nemo_v3_6_STABLE/DOC/Namelists/namberg	(revision 6992)
+++ /branches/2015/nemo_v3_6_STABLE/DOC/Namelists/namberg	(revision 6992)
@@ -0,0 +1,34 @@
+!-----------------------------------------------------------------------
+&namberg       !   iceberg parameters
+!-----------------------------------------------------------------------
+      ln_icebergs              = .false.
+      ln_bergdia               = .true.               ! Calculate budgets
+      nn_verbose_level         = 1                    ! Turn on more verbose output if level > 0
+      nn_verbose_write         = 15                   ! Timesteps between verbose messages
+      nn_sample_rate           = 1                    ! Timesteps between sampling for trajectory storage
+                                                      ! Initial mass required for an iceberg of each class
+      rn_initial_mass          = 8.8e7, 4.1e8, 3.3e9, 1.8e10, 3.8e10, 7.5e10, 1.2e11, 2.2e11, 3.9e11, 7.4e11
+                                                      ! Proportion of calving mass to apportion to each class
+      rn_distribution          = 0.24, 0.12, 0.15, 0.18, 0.12, 0.07, 0.03, 0.03, 0.03, 0.02
+                                                      ! Ratio between effective and real iceberg mass (non-dim)
+                                                      ! i.e. number of icebergs represented at a point
+      rn_mass_scaling          = 2000, 200, 50, 20, 10, 5, 2, 1, 1, 1
+                                                      ! thickness of newly calved bergs (m)
+      rn_initial_thickness     = 40., 67., 133., 175., 250., 250., 250., 250., 250., 250.
+      rn_rho_bergs             = 850.                 ! Density of icebergs
+      rn_LoW_ratio             = 1.5                  ! Initial ratio L/W for newly calved icebergs
+      ln_operator_splitting    = .true.               ! Use first order operator splitting for thermodynamics
+      rn_bits_erosion_fraction = 0.                   ! Fraction of erosion melt flux to divert to bergy bits
+      rn_sicn_shift            = 0.                   ! Shift of sea-ice concn in erosion flux (0<sicn_shift<1)
+      ln_passive_mode          = .false.              ! iceberg - ocean decoupling
+      nn_test_icebergs         =  10                  ! Create test icebergs of this class (-1 = no)
+                                                      ! Put a test iceberg at each gridpoint in box (lon1,lon2,lat1,lat2)
+      rn_test_box              = 108.0,  116.0, -66.0, -58.0
+      rn_speed_limit           = 0.                   ! CFL speed limit for a berg
+
+!              ! 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      !
+      sn_icb =  'calving' ,       -1           , 'calvingmask',  .true.        , .true.  , 'yearly'  , ''       , ''       , ''
+
+      cn_dir = './'
+/
Index: /branches/2015/nemo_v3_6_STABLE/DOC/Namelists/nambfr
===================================================================
--- /branches/2015/nemo_v3_6_STABLE/DOC/Namelists/nambfr	(revision 6992)
+++ /branches/2015/nemo_v3_6_STABLE/DOC/Namelists/nambfr	(revision 6992)
@@ -0,0 +1,23 @@
+!-----------------------------------------------------------------------
+&nambfr        !   bottom friction
+!-----------------------------------------------------------------------
+   nn_bfr      =    1      !  type of bottom friction :   = 0 : free slip,  = 1 : linear friction
+                           !                              = 2 : nonlinear friction
+   rn_bfri1    =    4.e-4  !  bottom drag coefficient (linear case)
+   rn_bfri2    =    1.e-3  !  bottom drag coefficient (non linear case). Minimum coeft if ln_loglayer=T
+   rn_bfri2_max =   1.e-1  !  max. bottom drag coefficient (non linear case and ln_loglayer=T)
+   rn_bfeb2    =    2.5e-3 !  bottom turbulent kinetic energy background  (m2/s2)
+   rn_bfrz0    =    3.e-3  !  bottom roughness [m] if ln_loglayer=T
+   ln_bfr2d    = .false.   !  horizontal variation of the bottom friction coef (read a 2D mask file )
+   rn_bfrien   =    50.    !  local multiplying factor of bfr (ln_bfr2d=T)
+   rn_tfri1    =    4.e-4  !  top drag coefficient (linear case)
+   rn_tfri2    =    2.5e-3 !  top drag coefficient (non linear case). Minimum coeft if ln_loglayer=T
+   rn_tfri2_max =   1.e-1  !  max. top drag coefficient (non linear case and ln_loglayer=T)
+   rn_tfeb2    =    0.0    !  top turbulent kinetic energy background  (m2/s2)
+   rn_tfrz0    =    3.e-3  !  top roughness [m] if ln_loglayer=T
+   ln_tfr2d    = .false.   !  horizontal variation of the top friction coef (read a 2D mask file )
+   rn_tfrien   =    50.    !  local multiplying factor of tfr (ln_tfr2d=T)
+
+   ln_bfrimp   = .true.    !  implicit bottom friction (requires ln_zdfexp = .false. if true)
+   ln_loglayer = .false.   !  logarithmic formulation (non linear case)
+/
Index: /branches/2015/nemo_v3_6_STABLE/DOC/Namelists/namc1d
===================================================================
--- /branches/2015/nemo_v3_6_STABLE/DOC/Namelists/namc1d	(revision 6992)
+++ /branches/2015/nemo_v3_6_STABLE/DOC/Namelists/namc1d	(revision 6992)
@@ -0,0 +1,7 @@
+!-----------------------------------------------------------------------
+&namc1d        !   1D configuration options                             ("key_c1d")
+!-----------------------------------------------------------------------
+   rn_lat1d    =      50   !  Column latitude (default at PAPA station)
+   rn_lon1d    =    -145   !  Column longitude (default at PAPA station)
+   ln_c1d_locpt=  .true.   ! Localization of 1D config in a grid (T) or independant point (F)
+/
Index: /branches/2015/nemo_v3_6_STABLE/DOC/Namelists/namc1d_dyndmp
===================================================================
--- /branches/2015/nemo_v3_6_STABLE/DOC/Namelists/namc1d_dyndmp	(revision 6992)
+++ /branches/2015/nemo_v3_6_STABLE/DOC/Namelists/namc1d_dyndmp	(revision 6992)
@@ -0,0 +1,5 @@
+!-----------------------------------------------------------------------
+&namc1d_dyndmp !   U & V newtonian damping                              ("key_c1d")
+!-----------------------------------------------------------------------
+   ln_dyndmp   =  .false.  !  add a damping term (T) or not (F)
+/
Index: /branches/2015/nemo_v3_6_STABLE/DOC/Namelists/namc1d_uvd
===================================================================
--- /branches/2015/nemo_v3_6_STABLE/DOC/Namelists/namc1d_uvd	(revision 6992)
+++ /branches/2015/nemo_v3_6_STABLE/DOC/Namelists/namc1d_uvd	(revision 6992)
@@ -0,0 +1,12 @@
+!-----------------------------------------------------------------------
+&namc1d_uvd    !   data: U & V currents                                 ("key_c1d")
+!-----------------------------------------------------------------------
+!              !  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      !
+   sn_ucur     = 'ucurrent'  ,         -1        ,'u_current',   .false.    , .true. , 'monthly' ,  ''      ,  'Ume'   , ''
+   sn_vcur     = 'vcurrent'  ,         -1        ,'v_current',   .false.    , .true. , 'monthly' ,  ''      ,  'Vme'   , ''
+!
+   cn_dir        = './'    !  root directory for the location of the files
+   ln_uvd_init   = .false. !  Initialisation of ocean U & V with U & V input data (T) or not (F)
+   ln_uvd_dyndmp = .false. !  damping of ocean U & V toward U & V input data (T) or not (F)
+/
Index: /branches/2015/nemo_v3_6_STABLE/DOC/Namelists/namcfg
===================================================================
--- /branches/2015/nemo_v3_6_STABLE/DOC/Namelists/namcfg	(revision 6992)
+++ /branches/2015/nemo_v3_6_STABLE/DOC/Namelists/namcfg	(revision 6992)
@@ -0,0 +1,22 @@
+!-----------------------------------------------------------------------
+&namcfg     !   parameters of the configuration
+!-----------------------------------------------------------------------
+   cp_cfg      =  "default"            !  name of the configuration
+   cp_cfz      =  "no zoom"            !  name of the zoom of configuration
+   jp_cfg      =       0               !  resolution of the configuration
+   jpidta      =      10               !  1st lateral dimension ( >= jpi )
+   jpjdta      =      12               !  2nd    "         "    ( >= jpj )
+   jpkdta      =      31               !  number of levels      ( >= jpk )
+   jpiglo      =      10               !  1st dimension of global domain --> i =jpidta
+   jpjglo      =      12               !  2nd    -                  -    --> j =jpjdta
+   jpizoom     =       1               !  left bottom (i,j) indices of the zoom
+   jpjzoom     =       1               !  in data domain indices
+   jperio      =       0               !  lateral cond. type (between 0 and 6)
+                                       !  = 0 closed                 ;   = 1 cyclic East-West
+                                       !  = 2 equatorial symmetric   ;   = 3 North fold T-point pivot
+                                       !  = 4 cyclic East-West AND North fold T-point pivot
+                                       !  = 5 North fold F-point pivot
+                                       !  = 6 cyclic East-West AND North fold F-point pivot
+   ln_use_jattr = .false.              !  use (T) the file attribute: open_ocean_jstart, if present
+                                       !  in netcdf input files, as the start j-row for reading
+/
Index: /branches/2015/nemo_v3_6_STABLE/DOC/Namelists/namcfg_orca1
===================================================================
--- /branches/2015/nemo_v3_6_STABLE/DOC/Namelists/namcfg_orca1	(revision 6992)
+++ /branches/2015/nemo_v3_6_STABLE/DOC/Namelists/namcfg_orca1	(revision 6992)
@@ -0,0 +1,12 @@
+!-----------------------------------------------------------------------
+&namcfg        !   parameters of the configuration
+!-----------------------------------------------------------------------
+   cp_cfg      =  "orca"               !  name of the configuration
+   jp_cfg      =       1               !  resolution of the configuration
+   jpidta      =     362               !  1st lateral dimension ( >= jpi )
+   jpjdta      =     292               !  2nd    "         "    ( >= jpj )
+   jpkdta      =      75               !  number of levels      ( >= jpk )
+   jpiglo      =     362               !  1st dimension of global domain --> i =jpidta
+   jpjglo      =     292               !  2nd    -                  -    --> j  =jpjdta
+   jperio      =       6               !  lateral cond. type (between 0 and 6)
+   ln_use_jattr = .true.               !  use (T) the file attribute: open_ocean_jstart if present
Index: /branches/2015/nemo_v3_6_STABLE/DOC/Namelists/namcla
===================================================================
--- /branches/2015/nemo_v3_6_STABLE/DOC/Namelists/namcla	(revision 6992)
+++ /branches/2015/nemo_v3_6_STABLE/DOC/Namelists/namcla	(revision 6992)
@@ -0,0 +1,5 @@
+!-----------------------------------------------------------------------
+&namcla        !   cross land advection
+!-----------------------------------------------------------------------
+   nn_cla      =    0      !  advection between 2 ocean pts separates by land
+/
Index: /branches/2015/nemo_v3_6_STABLE/DOC/Namelists/namcrs
===================================================================
--- /branches/2015/nemo_v3_6_STABLE/DOC/Namelists/namcrs	(revision 6992)
+++ /branches/2015/nemo_v3_6_STABLE/DOC/Namelists/namcrs	(revision 6992)
@@ -0,0 +1,16 @@
+!-----------------------------------------------------------------------
+&namcrs        !   Grid coarsening for dynamics output and/or
+               !   passive tracer coarsened online simulations
+!-----------------------------------------------------------------------
+   nn_factx    = 3         !  Reduction factor of x-direction
+   nn_facty    = 3         !  Reduction factor of y-direction
+   nn_binref   = 0         !  Bin centering preference: NORTH or EQUAT
+                           !  0, coarse grid is binned with preferential treatment of the north fold
+                           !  1, coarse grid is binned with centering at the equator
+                           !    Symmetry with nn_facty being odd-numbered. Asymmetry with even-numbered nn_facty.
+   nn_msh_crs  = 1         !  create (=1) a mesh file or not (=0)
+   nn_crs_kz   = 0         ! 0, MEAN of volume boxes
+                           ! 1, MAX of boxes
+                           ! 2, MIN of boxes
+   ln_crs_wn   = .true.    ! wn coarsened (T) or computed using horizontal divergence ( F )
+/
Index: /branches/2015/nemo_v3_6_STABLE/DOC/Namelists/namctl
===================================================================
--- /branches/2015/nemo_v3_6_STABLE/DOC/Namelists/namctl	(revision 6992)
+++ /branches/2015/nemo_v3_6_STABLE/DOC/Namelists/namctl	(revision 6992)
@@ -0,0 +1,15 @@
+!-----------------------------------------------------------------------
+&namctl        !   Control prints & Benchmark
+!-----------------------------------------------------------------------
+   ln_ctl      = .false.   !  trends control print (expensive!)
+   nn_print    =    0      !  level of print (0 no extra print)
+   nn_ictls    =    0      !  start i indice of control sum (use to compare mono versus
+   nn_ictle    =    0      !  end   i indice of control sum        multi processor runs
+   nn_jctls    =    0      !  start j indice of control               over a subdomain)
+   nn_jctle    =    0      !  end   j indice of control
+   nn_isplt    =    1      !  number of processors in i-direction
+   nn_jsplt    =    1      !  number of processors in j-direction
+   nn_bench    =    0      !  Bench mode (1/0): CAUTION use zero except for bench
+                           !     (no physical validity of the results)
+   nn_timing   =    0      !  timing by routine activated (=1) creates timing.output file, or not (=0)
+/
Index: /branches/2015/nemo_v3_6_STABLE/DOC/Namelists/namdct
===================================================================
--- /branches/2015/nemo_v3_6_STABLE/DOC/Namelists/namdct	(revision 6992)
+++ /branches/2015/nemo_v3_6_STABLE/DOC/Namelists/namdct	(revision 6992)
@@ -0,0 +1,9 @@
+!-----------------------------------------------------------------------
+&namdct        ! transports through sections
+!-----------------------------------------------------------------------
+    nn_dct      = 15       !  time step frequency for transports computing
+    nn_dctwri   = 15       !  time step frequency for transports writing
+    nn_secdebug = 112      !      0 : no section to debug
+                           !     -1 : debug all section
+                           !  0 < n : debug section number n
+/
Index: /branches/2015/nemo_v3_6_STABLE/DOC/Namelists/namdom
===================================================================
--- /branches/2015/nemo_v3_6_STABLE/DOC/Namelists/namdom	(revision 6992)
+++ /branches/2015/nemo_v3_6_STABLE/DOC/Namelists/namdom	(revision 6992)
@@ -0,0 +1,43 @@
+!-----------------------------------------------------------------------
+&namdom        !   space and time domain (bathymetry, mesh, timestep)
+!-----------------------------------------------------------------------
+   nn_bathy    =    1      !  compute (=0) or read (=1) the bathymetry file
+   rn_bathy    =    0.     !  value of the bathymetry. if (=0) bottom flat at jpkm1
+   nn_closea   =    0      !  remove (=0) or keep (=1) closed seas and lakes (ORCA)
+   nn_msh      =    1      !  create (=1) a mesh file or not (=0)
+   rn_hmin     =   -3.     !  min depth of the ocean (>0) or min number of ocean level (<0)
+   rn_e3zps_min=   20.     !  partial step thickness is set larger than the minimum of
+   rn_e3zps_rat=    0.1    !  rn_e3zps_min and rn_e3zps_rat*e3t, with 0<rn_e3zps_rat<1
+                           !
+   rn_rdt      = 5760.     !  time step for the dynamics (and tracer if nn_acc=0)
+   rn_atfp     =    0.1    !  asselin time filter parameter
+   nn_acc      =    0      !  acceleration of convergence : =1      used, rdt < rdttra(k)
+                                 !                          =0, not used, rdt = rdttra
+   rn_rdtmin   = 28800.          !  minimum time step on tracers (used if nn_acc=1)
+   rn_rdtmax   = 28800.          !  maximum time step on tracers (used if nn_acc=1)
+   rn_rdth     =  800.           !  depth variation of tracer time step  (used if nn_acc=1)
+   ln_crs      = .false.      !  Logical switch for coarsening module
+   jphgr_msh   =       0               !  type of horizontal mesh
+                                       !  = 0 curvilinear coordinate on the sphere read in coordinate.nc
+                                       !  = 1 geographical mesh on the sphere with regular grid-spacing
+                                       !  = 2 f-plane with regular grid-spacing
+                                       !  = 3 beta-plane with regular grid-spacing
+                                       !  = 4 Mercator grid with T/U point at the equator
+   ppglam0     =       0.0             !  longitude of first raw and column T-point (jphgr_msh = 1)
+   ppgphi0     =     -35.0             ! latitude  of first raw and column T-point (jphgr_msh = 1)
+   ppe1_deg    =       1.0             !  zonal      grid-spacing (degrees)
+   ppe2_deg    =       0.5             !  meridional grid-spacing (degrees)
+   ppe1_m      =    5000.0             !  zonal      grid-spacing (degrees)
+   ppe2_m      =    5000.0             !  meridional grid-spacing (degrees)
+   ppsur       =    -4762.96143546300  !  ORCA r4, r2 and r05 coefficients
+   ppa0        =      255.58049070440  ! (default coefficients)
+   ppa1        =      245.58132232490  !
+   ppkth       =       21.43336197938  !
+   ppacr       =        3.0            !
+   ppdzmin     =       10.             !  Minimum vertical spacing
+   pphmax      =     5000.             !  Maximum depth
+   ldbletanh   =    .TRUE.             !  Use/do not use double tanf function for vertical coordinates
+   ppa2        =      100.760928500000 !  Double tanh function parameters
+   ppkth2      =       48.029893720000 !
+   ppacr2      =       13.000000000000 !
+/
Index: /branches/2015/nemo_v3_6_STABLE/DOC/Namelists/namdyn_adv
===================================================================
--- /branches/2015/nemo_v3_6_STABLE/DOC/Namelists/namdyn_adv	(revision 6992)
+++ /branches/2015/nemo_v3_6_STABLE/DOC/Namelists/namdyn_adv	(revision 6992)
@@ -0,0 +1,9 @@
+!-----------------------------------------------------------------------
+&namdyn_adv    !   formulation of the momentum advection
+!-----------------------------------------------------------------------
+   ln_dynadv_vec = .true.  !  vector form (T) or flux form (F)
+   nn_dynkeg     = 0       ! scheme for grad(KE): =0   C2  ;  =1   Hollingsworth correction
+   ln_dynadv_cen2= .false. !  flux form - 2nd order centered scheme
+   ln_dynadv_ubs = .false. !  flux form - 3rd order UBS      scheme
+   ln_dynzad_zts = .false. !  Use (T) sub timestepping for vertical momentum advection
+/
Index: /branches/2015/nemo_v3_6_STABLE/DOC/Namelists/namdyn_hpg
===================================================================
--- /branches/2015/nemo_v3_6_STABLE/DOC/Namelists/namdyn_hpg	(revision 6992)
+++ /branches/2015/nemo_v3_6_STABLE/DOC/Namelists/namdyn_hpg	(revision 6992)
@@ -0,0 +1,12 @@
+!-----------------------------------------------------------------------
+&namdyn_hpg    !   Hydrostatic pressure gradient option
+!-----------------------------------------------------------------------
+   ln_hpg_zco  = .false.   !  z-coordinate - full steps
+   ln_hpg_zps  = .true.    !  z-coordinate - partial steps (interpolation)
+   ln_hpg_sco  = .false.   !  s-coordinate (standard jacobian formulation)
+   ln_hpg_isf  = .false.   !  s-coordinate (sco ) adapted to isf
+   ln_hpg_djc  = .false.   !  s-coordinate (Density Jacobian with Cubic polynomial)
+   ln_hpg_prj  = .false.   !  s-coordinate (Pressure Jacobian scheme)
+   ln_dynhpg_imp = .false. !  time stepping: semi-implicit time scheme  (T)
+                                 !           centered      time scheme  (F)
+/
Index: /branches/2015/nemo_v3_6_STABLE/DOC/Namelists/namdyn_ldf
===================================================================
--- /branches/2015/nemo_v3_6_STABLE/DOC/Namelists/namdyn_ldf	(revision 6992)
+++ /branches/2015/nemo_v3_6_STABLE/DOC/Namelists/namdyn_ldf	(revision 6992)
@@ -0,0 +1,20 @@
+!-----------------------------------------------------------------------
+&namdyn_ldf    !   lateral diffusion on momentum
+!-----------------------------------------------------------------------
+   !                       !  Type of the operator :
+   ln_dynldf_lap    =  .true.   !  laplacian operator
+   ln_dynldf_bilap  =  .false.  !  bilaplacian operator
+   !                       !  Direction of action  :
+   ln_dynldf_level  =  .false.  !  iso-level
+   ln_dynldf_hor    =  .true.   !  horizontal (geopotential)            (require "key_ldfslp" in s-coord.)
+   ln_dynldf_iso    =  .false.  !  iso-neutral                          (require "key_ldfslp")
+   !                       !  Coefficient
+   rn_ahm_0_lap     = 40000.    !  horizontal laplacian eddy viscosity   [m2/s]
+   rn_ahmb_0        =     0.    !  background eddy viscosity for ldf_iso [m2/s]
+   rn_ahm_0_blp     =     0.    !  horizontal bilaplacian eddy viscosity [m4/s]
+   rn_cmsmag_1      =     3.    !  constant in laplacian Smagorinsky viscosity
+   rn_cmsmag_2      =     3     !  constant in bilaplacian Smagorinsky viscosity
+   rn_cmsh          =     1.    !  1 or 0 , if 0 -use only shear for Smagorinsky viscosity
+   rn_ahm_m_blp     =    -1.e12 !  upper limit for bilap  abs(ahm) < min( dx^4/128rdt, rn_ahm_m_blp)
+   rn_ahm_m_lap     = 40000.    !  upper limit for lap  ahm < min(dx^2/16rdt, rn_ahm_m_lap)
+/
Index: /branches/2015/nemo_v3_6_STABLE/DOC/Namelists/namdyn_nept
===================================================================
--- /branches/2015/nemo_v3_6_STABLE/DOC/Namelists/namdyn_nept	(revision 6992)
+++ /branches/2015/nemo_v3_6_STABLE/DOC/Namelists/namdyn_nept	(revision 6992)
@@ -0,0 +1,15 @@
+!-----------------------------------------------------------------------
+&namdyn_nept  !   Neptune effect (simplified: lateral and vertical diffusions removed)
+!-----------------------------------------------------------------------
+   ! Suggested lengthscale values are those of Eby & Holloway (1994) for a coarse model
+   ln_neptsimp       = .false.  ! yes/no use simplified neptune
+
+   ln_smooth_neptvel = .false.  ! yes/no smooth zunep, zvnep
+   rn_tslse          =  1.2e4   ! value of lengthscale L at the equator
+   rn_tslsp          =  3.0e3   ! value of lengthscale L at the pole
+   ! Specify whether to ramp down the Neptune velocity in shallow
+   ! water, and if so the depth range controlling such ramping down
+   ln_neptramp       = .true.   ! ramp down Neptune velocity in shallow water
+   rn_htrmin         =  100.0   ! min. depth of transition range
+   rn_htrmax         =  200.0   ! max. depth of transition range
+/
Index: /branches/2015/nemo_v3_6_STABLE/DOC/Namelists/namdyn_spg
===================================================================
--- /branches/2015/nemo_v3_6_STABLE/DOC/Namelists/namdyn_spg	(revision 6992)
+++ /branches/2015/nemo_v3_6_STABLE/DOC/Namelists/namdyn_spg	(revision 6992)
@@ -0,0 +1,6 @@
+!-----------------------------------------------------------------------
+!namdyn_spg    !   surface pressure gradient   (CPP key only)
+!-----------------------------------------------------------------------
+!                          !  explicit free surface                     ("key_dynspg_exp")
+!                          !  filtered free surface                     ("key_dynspg_flt")
+!                          !  split-explicit free surface               ("key_dynspg_ts")
Index: /branches/2015/nemo_v3_6_STABLE/DOC/Namelists/namdyn_vor
===================================================================
--- /branches/2015/nemo_v3_6_STABLE/DOC/Namelists/namdyn_vor	(revision 6992)
+++ /branches/2015/nemo_v3_6_STABLE/DOC/Namelists/namdyn_vor	(revision 6992)
@@ -0,0 +1,9 @@
+!-----------------------------------------------------------------------
+&namdyn_vor    !   option of physics/algorithm (not control by CPP keys)
+!-----------------------------------------------------------------------
+   ln_dynvor_ene = .false. !  enstrophy conserving scheme
+   ln_dynvor_ens = .false. !  energy conserving scheme
+   ln_dynvor_mix = .false. !  mixed scheme
+   ln_dynvor_een = .true.  !  energy & enstrophy scheme
+   ln_dynvor_een_old = .false.  !  energy & enstrophy scheme - original formulation
+/
Index: /branches/2015/nemo_v3_6_STABLE/DOC/Namelists/nameos
===================================================================
--- /branches/2015/nemo_v3_6_STABLE/DOC/Namelists/nameos	(revision 6992)
+++ /branches/2015/nemo_v3_6_STABLE/DOC/Namelists/nameos	(revision 6992)
@@ -0,0 +1,19 @@
+!-----------------------------------------------------------------------
+&nameos        !   ocean physical parameters
+!-----------------------------------------------------------------------
+   nn_eos      =  -1     !  type of equation of state and Brunt-Vaisala frequency
+                                 !  =-1, TEOS-10
+                                 !  = 0, EOS-80
+                                 !  = 1, S-EOS   (simplified eos)
+   ln_useCT    = .true.  ! use of Conservative Temp. ==> surface CT converted in Pot. Temp. in sbcssm
+   !                             !
+   !                     ! S-EOS coefficients :
+   !                             !  rd(T,S,Z)*rau0 = -a0*(1+.5*lambda*dT+mu*Z+nu*dS)*dT+b0*dS
+   rn_a0       =  1.6550e-1      !  thermal expension coefficient (nn_eos= 1)
+   rn_b0       =  7.6554e-1      !  saline  expension coefficient (nn_eos= 1)
+   rn_lambda1  =  5.9520e-2      !  cabbeling coeff in T^2  (=0 for linear eos)
+   rn_lambda2  =  7.4914e-4      !  cabbeling coeff in S^2  (=0 for linear eos)
+   rn_mu1      =  1.4970e-4      !  thermobaric coeff. in T (=0 for linear eos)
+   rn_mu2      =  1.1090e-5      !  thermobaric coeff. in S (=0 for linear eos)
+   rn_nu       =  2.4341e-3      !  cabbeling coeff in T*S  (=0 for linear eos)
+/
Index: /branches/2015/nemo_v3_6_STABLE/DOC/Namelists/namflo
===================================================================
--- /branches/2015/nemo_v3_6_STABLE/DOC/Namelists/namflo	(revision 6992)
+++ /branches/2015/nemo_v3_6_STABLE/DOC/Namelists/namflo	(revision 6992)
@@ -0,0 +1,14 @@
+!-----------------------------------------------------------------------
+&namflo       !   float parameters                                      ("key_float")
+!-----------------------------------------------------------------------
+   jpnfl         = 1          !  total number of floats during the run
+   jpnnewflo     = 0          !  number of floats for the restart
+   ln_rstflo     = .false.    !  float restart (T) or not (F)
+   nn_writefl    =      75    !  frequency of writing in float output file
+   nn_stockfl    =    5475    !  frequency of creation of the float restart file
+   ln_argo       = .false.    !  Argo type floats (stay at the surface each 10 days)
+   ln_flork4     = .false.    !  trajectories computed with a 4th order Runge-Kutta (T)
+                              !  or computed with Blanke' scheme (F)
+   ln_ariane     = .true.     !  Input with Ariane tool convention(T)
+   ln_flo_ascii  = .true.     !  Output with Ariane tool netcdf convention(F) or ascii file (T)
+/
Index: /branches/2015/nemo_v3_6_STABLE/DOC/Namelists/namhsb
===================================================================
--- /branches/2015/nemo_v3_6_STABLE/DOC/Namelists/namhsb	(revision 6992)
+++ /branches/2015/nemo_v3_6_STABLE/DOC/Namelists/namhsb	(revision 6992)
@@ -0,0 +1,5 @@
+!-----------------------------------------------------------------------
+&namhsb       !  Heat and salt budgets
+!-----------------------------------------------------------------------
+   ln_diahsb  = .false.    !  check the heat and salt budgets (T) or not (F)
+/
Index: /branches/2015/nemo_v3_6_STABLE/DOC/Namelists/namlbc
===================================================================
--- /branches/2015/nemo_v3_6_STABLE/DOC/Namelists/namlbc	(revision 6992)
+++ /branches/2015/nemo_v3_6_STABLE/DOC/Namelists/namlbc	(revision 6992)
@@ -0,0 +1,7 @@
+!-----------------------------------------------------------------------
+&namlbc        !   lateral momentum boundary condition
+!-----------------------------------------------------------------------
+   rn_shlat    =    2.     !  shlat = 0  !  0 < shlat < 2  !  shlat = 2  !  2 < shlat
+                           !  free slip  !   partial slip  !   no slip   ! strong slip
+   ln_vorlat   = .false.   !  consistency of vorticity boundary condition with analytical eqs.
+/
Index: /branches/2015/nemo_v3_6_STABLE/DOC/Namelists/nammpp
===================================================================
--- /branches/2015/nemo_v3_6_STABLE/DOC/Namelists/nammpp	(revision 6992)
+++ /branches/2015/nemo_v3_6_STABLE/DOC/Namelists/nammpp	(revision 6992)
@@ -0,0 +1,11 @@
+!-----------------------------------------------------------------------
+&nammpp        !   Massively Parallel Processing                        ("key_mpp_mpi)
+!-----------------------------------------------------------------------
+   cn_mpi_send =  'I'      !  mpi send/recieve type   ='S', 'B', or 'I' for standard send,
+                           !  buffer blocking send or immediate non-blocking sends, resp.
+   nn_buffer   =   0       !  size in bytes of exported buffer ('B' case), 0 no exportation
+   ln_nnogather=  .false.  !  activate code to avoid mpi_allgather use at the northfold
+   jpni        =   0       !  jpni   number of processors following i (set automatically if < 1)
+   jpnj        =   0       !  jpnj   number of processors following j (set automatically if < 1)
+   jpnij       =   0       !  jpnij  number of local domains (set automatically if < 1)
+/
Index: /branches/2015/nemo_v3_6_STABLE/DOC/Namelists/namnc4
===================================================================
--- /branches/2015/nemo_v3_6_STABLE/DOC/Namelists/namnc4	(revision 6992)
+++ /branches/2015/nemo_v3_6_STABLE/DOC/Namelists/namnc4	(revision 6992)
@@ -0,0 +1,11 @@
+!-----------------------------------------------------------------------
+&namnc4        !   netcdf4 chunking and compression settings            ("key_netcdf4")
+!-----------------------------------------------------------------------
+   nn_nchunks_i=   4       !  number of chunks in i-dimension
+   nn_nchunks_j=   4       !  number of chunks in j-dimension
+   nn_nchunks_k=   31      !  number of chunks in k-dimension
+                           !  setting nn_nchunks_k = jpk will give a chunk size of 1 in the vertical which
+                           !  is optimal for postprocessing which works exclusively with horizontal slabs
+   ln_nc4zip   = .true.    !  (T) use netcdf4 chunking and compression
+                           !  (F) ignore chunking information and produce netcdf3-compatible files
+/
Index: /branches/2015/nemo_v3_6_STABLE/DOC/Namelists/namobc
===================================================================
--- /branches/2015/nemo_v3_6_STABLE/DOC/Namelists/namobc	(revision 6992)
+++ /branches/2015/nemo_v3_6_STABLE/DOC/Namelists/namobc	(revision 6992)
@@ -0,0 +1,21 @@
+!-----------------------------------------------------------------------
+&namobc        !   open boundaries parameters                           ("key_obc")
+!-----------------------------------------------------------------------
+   ln_obc_clim = .false.   !  climatological obc data files (T) or not (F)
+   ln_vol_cst  = .true.    !  impose the total volume conservation (T) or not (F)
+   ln_obc_fla  = .false.   !  Flather open boundary condition
+   nn_obcdta   =    1      !  = 0 the obc data are equal to the initial state
+                           !  = 1 the obc data are read in 'obc.dta' files
+   cn_obcdta   = 'annual'  !  set to annual if obc datafile hold 1 year of data
+                           !  set to monthly if obc datafile hold 1 month of data
+   rn_dpein    =    1.     !  damping time scale for inflow at east  open boundary
+   rn_dpwin    =    1.     !     -           -         -       west    -      -
+   rn_dpnin    =    1.     !     -           -         -       north   -      -
+   rn_dpsin    =    1.     !     -           -         -       south   -      -
+   rn_dpeob    = 3000.     !  time relaxation (days) for the east  open boundary
+   rn_dpwob    =   15.     !     -           -         -     west    -      -
+   rn_dpnob    = 3000.     !     -           -         -     north   -      -
+   rn_dpsob    =   15.     !     -           -         -     south   -      -
+   rn_volemp   =    1.     !  = 0 the total volume change with the surface flux (E-P-R)
+                           !  = 1 the total volume remains constant
+/
Index: /branches/2015/nemo_v3_6_STABLE/DOC/Namelists/namobs
===================================================================
--- /branches/2015/nemo_v3_6_STABLE/DOC/Namelists/namobs	(revision 6992)
+++ /branches/2015/nemo_v3_6_STABLE/DOC/Namelists/namobs	(revision 6992)
@@ -0,0 +1,57 @@
+!-----------------------------------------------------------------------
+&namobs       !  observation usage switch                               ('key_diaobs')
+!-----------------------------------------------------------------------
+   ln_t3d     = .false.    ! Logical switch for T profile observations
+   ln_s3d     = .false.    ! Logical switch for S profile observations
+   ln_ena     = .false.    ! Logical switch for ENACT insitu data set
+   ln_cor     = .false.    ! Logical switch for Coriolis insitu data set
+   ln_profb   = .false.    ! Logical switch for feedback insitu data set
+   ln_sla     = .false.    ! Logical switch for SLA observations
+   ln_sladt   = .false.    ! Logical switch for AVISO SLA data
+   ln_slafb   = .false.    ! Logical switch for feedback SLA data
+   ln_ssh     = .false.    ! Logical switch for SSH observations
+   ln_sst     = .false.    ! Logical switch for SST observations
+   ln_reysst  = .false.    ! Logical switch for Reynolds observations
+   ln_ghrsst  = .false.    ! Logical switch for GHRSST observations
+   ln_sstfb   = .false.    ! Logical switch for feedback SST data
+   ln_sss     = .false.    ! Logical switch for SSS observations
+   ln_seaice  = .false.    ! Logical switch for Sea Ice observations
+   ln_vel3d   = .false.    ! Logical switch for velocity observations
+   ln_velavcur= .false     ! Logical switch for velocity daily av. cur.
+   ln_velhrcur= .false     ! Logical switch for velocity high freq. cur.
+   ln_velavadcp = .false.  ! Logical switch for velocity daily av. ADCP
+   ln_velhradcp = .false.  ! Logical switch for velocity high freq. ADCP
+   ln_velfb   = .false.    ! Logical switch for feedback velocity data
+   ln_grid_global = .false. ! Global distribtion of observations
+   ln_grid_search_lookup = .false. !  Logical switch for obs grid search w/lookup table
+   grid_search_file = 'grid_search'  !  Grid search lookup file header
+! All of the *files* variables below are arrays. Use namelist_cfg to add more files
+   enactfiles = 'enact.nc' !  ENACT input observation file names (specify full array in namelist_cfg)
+   coriofiles = 'corio.nc' !  Coriolis input observation file name
+   profbfiles = 'profiles_01.nc' ! Profile feedback input observation file name
+   ln_profb_enatim = .false !        Enact feedback input time setting switch
+   slafilesact = 'sla_act.nc' !  Active SLA input observation file names
+   slafilespas = 'sla_pass.nc' ! Passive SLA input observation file names
+   slafbfiles = 'sla_01.nc' ! slafbfiles: Feedback SLA input observation file names
+   sstfiles = 'ghrsst.nc'   ! GHRSST input observation file names
+   sstfbfiles = 'sst_01.nc' ! Feedback SST input observation file names
+   seaicefiles = 'seaice_01.nc' ! Sea Ice input observation file names
+   velavcurfiles = 'velavcurfile.nc'  ! Vel. cur. daily av. input file name
+   velhrcurfiles = 'velhrcurfile.nc'  ! Vel. cur. high freq. input file name
+   velavadcpfiles = 'velavadcpfile.nc' ! Vel. ADCP daily av. input file name
+   velhradcpfiles = 'velhradcpfile.nc' ! Vel. ADCP high freq. input file name
+   velfbfiles = 'velfbfile.nc' ! Vel. feedback input observation file name
+   dobsini = 20000101.000000  !  Initial date in window YYYYMMDD.HHMMSS
+   dobsend = 20010101.000000  !  Final date in window YYYYMMDD.HHMMSS
+   n1dint = 0  !               Type of vertical interpolation method
+   n2dint = 0  !               Type of horizontal interpolation method
+   ln_nea = .false.   !        Rejection of observations near land switch
+   nmsshc     = 0     !        MSSH correction scheme
+   mdtcorr = 1.61     !        MDT  correction
+   mdtcutoff = 65.0   !        MDT cutoff for computed correction
+   ln_altbias = .false.    ! Logical switch for alt bias
+   ln_ignmis  = .true.     ! Logical switch for ignoring missing files
+   endailyavtypes = 820    ! ENACT daily average types - array (use namelist_cfg to set more values)
+   ln_grid_global = .true.
+   ln_grid_search_lookup = .false.
+/
Index: /branches/2015/nemo_v3_6_STABLE/DOC/Namelists/namptr
===================================================================
--- /branches/2015/nemo_v3_6_STABLE/DOC/Namelists/namptr	(revision 6992)
+++ /branches/2015/nemo_v3_6_STABLE/DOC/Namelists/namptr	(revision 6992)
@@ -0,0 +1,6 @@
+!-----------------------------------------------------------------------
+&namptr       !   Poleward Transport Diagnostic
+!-----------------------------------------------------------------------
+   ln_diaptr  = .false.    !  Poleward heat and salt transport (T) or not (F)
+   ln_subbas  = .false.     !  Atlantic/Pacific/Indian basins computation (T) or not
+/
Index: /branches/2015/nemo_v3_6_STABLE/DOC/Namelists/namrun
===================================================================
--- /branches/2015/nemo_v3_6_STABLE/DOC/Namelists/namrun	(revision 6992)
+++ /branches/2015/nemo_v3_6_STABLE/DOC/Namelists/namrun	(revision 6992)
@@ -0,0 +1,30 @@
+!-----------------------------------------------------------------------
+&namrun        !   parameters of the run
+!-----------------------------------------------------------------------
+   nn_no       =       0   !  job number (no more used...)
+   cn_exp      =  "ORCA2"  !  experience name
+   nn_it000    =       1   !  first time step
+   nn_itend    =    5475   !  last  time step (std 5475)
+   nn_date0    =  010101   !  date at nit_0000 (format yyyymmdd) used if ln_rstart=F or (ln_rstart=T and nn_rstctl=0 or 1)
+   nn_leapy    =       0   !  Leap year calendar (1) or not (0)
+   ln_rstart   = .false.   !  start from rest (F) or from a restart file (T)
+   nn_euler    =       1   !  = 0 : start with forward time step if ln_rstart=T
+   nn_rstctl   =       0   !  restart control ==> activated only if ln_rstart=T
+                           !    = 0 nn_date0 read in namelist ; nn_it000 : read in namelist
+                           !    = 1 nn_date0 read in namelist ; nn_it000 : check consistancy between namelist and restart
+                           !    = 2 nn_date0 read in restart  ; nn_it000 : check consistancy between namelist and restart
+   cn_ocerst_in  = "restart"   !  suffix of ocean restart name (input)
+   cn_ocerst_indir = "."       !  directory from which to read input ocean restarts
+   cn_ocerst_out = "restart"   !  suffix of ocean restart name (output)
+   cn_ocerst_outdir = "."      !  directory in which to write output ocean restarts
+   nn_istate   =       0   !  output the initial state (1) or not (0)
+   ln_rst_list = .false.   !  output restarts at list of times using nn_stocklist (T) or at set frequency with nn_stock (F)
+   nn_stock    =    5475   !  frequency of creation of a restart file (modulo referenced to 1)
+   nn_stocklist = 0,0,0,0,0,0,0,0,0,0 ! List of timesteps when a restart file is to be written
+   nn_write    =    5475   !  frequency of write in the output file   (modulo referenced to nn_it000)
+   ln_dimgnnn  = .false.   !  DIMG file format: 1 file for all processors (F) or by processor (T)
+   ln_mskland  = .false.   !  mask land points in NetCDF outputs (costly: + ~15%)
+   ln_cfmeta   = .false.   !  output additional data to netCDF files required for compliance with the CF metadata standard
+   ln_clobber  = .false.   !  clobber (overwrite) an existing file
+   nn_chunksz  =       0   !  chunksize (bytes) for NetCDF file (works only with iom_nf90 routines)
+/
Index: /branches/2015/nemo_v3_6_STABLE/DOC/Namelists/namsbc
===================================================================
--- /branches/2015/nemo_v3_6_STABLE/DOC/Namelists/namsbc	(revision 6992)
+++ /branches/2015/nemo_v3_6_STABLE/DOC/Namelists/namsbc	(revision 6992)
@@ -0,0 +1,45 @@
+!-----------------------------------------------------------------------
+&namsbc        !   Surface Boundary Condition (surface module)
+!-----------------------------------------------------------------------
+   nn_fsbc     = 5         !  frequency of surface boundary condition computation
+                           !     (also = the frequency of sea-ice model call)
+   ln_ana      = .false.   !  analytical formulation                    (T => fill namsbc_ana )
+   ln_flx      = .false.   !  flux formulation                          (T => fill namsbc_flx )
+   ln_blk_clio = .false.   !  CLIO bulk formulation                     (T => fill namsbc_clio)
+   ln_blk_core = .true.    !  CORE bulk formulation                     (T => fill namsbc_core)
+   ln_blk_mfs  = .false.   !  MFS bulk formulation                      (T => fill namsbc_mfs )
+   ln_cpl      = .false.   !  atmosphere coupled   formulation          ( requires key_oasis3 )
+   ln_mixcpl   = .false.   !  forced-coupled mixed formulation          ( requires key_oasis3 )
+   nn_components = 0       !  configuration of the opa-sas OASIS coupling
+                           !  =0 no opa-sas OASIS coupling: default single executable configuration
+                           !  =1 opa-sas OASIS coupling: multi executable configuration, OPA component
+                           !  =2 opa-sas OASIS coupling: multi executable configuration, SAS component 
+   ln_apr_dyn  = .false.   !  Patm gradient added in ocean & ice Eqs.   (T => fill namsbc_apr )
+   nn_ice      = 2         !  =0 no ice boundary condition   ,
+                           !  =1 use observed ice-cover      ,
+                           !  =2 ice-model used                         ("key_lim3" or "key_lim2")
+   nn_ice_embd = 1         !  =0 levitating ice (no mass exchange, concentration/dilution effect)
+                           !  =1 levitating ice with mass and salt exchange but no presure effect
+                           !  =2 embedded sea-ice (full salt and mass exchanges and pressure)
+   ln_dm2dc    = .false.   !  daily mean to diurnal cycle on short wave
+   ln_rnf      = .true.    !  runoffs                                   (T   => fill namsbc_rnf)
+   nn_isf      = 0         !  ice shelf melting/freezing                (/=0 => fill namsbc_isf)
+                           !  0 =no isf                  1 = presence of ISF
+                           !  2 = bg03 parametrisation   3 = rnf file for isf
+                           !  4 = ISF fwf specified
+                           !  option 1 and 4 need ln_isfcav = .true. (domzgr)
+   ln_ssr      = .true.    !  Sea Surface Restoring on T and/or S       (T => fill namsbc_ssr)
+   nn_fwb      = 2         !  FreshWater Budget: =0 unchecked
+                           !     =1 global mean of e-p-r set to zero at each time step
+                           !     =2 annual global mean of e-p-r set to zero
+   ln_wave = .false.       !  Activate coupling with wave (either Stokes Drift or Drag coefficient, or both)  (T => fill namsbc_wave)
+   ln_cdgw = .false.       !  Neutral drag coefficient read from wave model (T => fill namsbc_wave)
+   ln_sdw  = .false.       !  Computation of 3D stokes drift                (T => fill namsbc_wave)
+   nn_lsm  = 0             !  =0 land/sea mask for input fields is not applied (keep empty land/sea mask filename field) ,
+                           !  =1:n number of iterations of land/sea mask application for input fields (fill land/sea mask filename field)
+   nn_limflx = -1          !  LIM3 Multi-category heat flux formulation (use -1 if LIM3 is not used)
+                           !  =-1  Use per-category fluxes, bypass redistributor, forced mode only, not yet implemented coupled
+                           !  = 0  Average per-category fluxes (forced and coupled mode)
+                           !  = 1  Average and redistribute per-category fluxes, forced mode only, not yet implemented coupled
+                           !  = 2  Redistribute a single flux over categories (coupled mode only)
+/
Index: /branches/2015/nemo_v3_6_STABLE/DOC/Namelists/namsbc_alb
===================================================================
--- /branches/2015/nemo_v3_6_STABLE/DOC/Namelists/namsbc_alb	(revision 6992)
+++ /branches/2015/nemo_v3_6_STABLE/DOC/Namelists/namsbc_alb	(revision 6992)
@@ -0,0 +1,11 @@
+!-----------------------------------------------------------------------
+&namsbc_alb    !   albedo parameters
+!-----------------------------------------------------------------------
+   nn_ice_alb  =    0   !  parameterization of ice/snow albedo
+                        !     0: Shine & Henderson-Sellers (JGR 1985)
+                        !     1: "home made" based on Brandt et al. (J. Climate 2005)
+                        !                         and Grenfell & Perovich (JGR 2004)
+   rn_albice   =  0.53  !  albedo of bare puddled ice (values from 0.49 to 0.58)
+                        !     0.53 (default) => if nn_ice_alb=0
+                        !     0.50 (default) => if nn_ice_alb=1
+/
Index: /branches/2015/nemo_v3_6_STABLE/DOC/Namelists/namsbc_ana
===================================================================
--- /branches/2015/nemo_v3_6_STABLE/DOC/Namelists/namsbc_ana	(revision 6992)
+++ /branches/2015/nemo_v3_6_STABLE/DOC/Namelists/namsbc_ana	(revision 6992)
@@ -0,0 +1,10 @@
+!-----------------------------------------------------------------------
+&namsbc_ana    !   analytical surface boundary condition
+!-----------------------------------------------------------------------
+   nn_tau000   =   0       !  gently increase the stress over the first ntau_rst time-steps
+   rn_utau0    =   0.5     !  uniform value for the i-stress
+   rn_vtau0    =   0.e0    !  uniform value for the j-stress
+   rn_qns0     =   0.e0    !  uniform value for the total heat flux
+   rn_qsr0     =   0.e0    !  uniform value for the solar radiation
+   rn_emp0     =   0.e0    !  uniform value for the freswater budget (E-P)
+/
Index: /branches/2015/nemo_v3_6_STABLE/DOC/Namelists/namsbc_apr
===================================================================
--- /branches/2015/nemo_v3_6_STABLE/DOC/Namelists/namsbc_apr	(revision 6992)
+++ /branches/2015/nemo_v3_6_STABLE/DOC/Namelists/namsbc_apr	(revision 6992)
@@ -0,0 +1,12 @@
+!-----------------------------------------------------------------------
+&namsbc_apr    !   Atmospheric pressure used as ocean forcing or in bulk
+!-----------------------------------------------------------------------
+!              !  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      !
+   sn_apr      = 'patm'      ,         -1        ,'somslpre',    .true.     , .true. , 'yearly'  ,  ''      ,   ''     , ''
+
+   cn_dir      = './'       !  root directory for the location of the bulk files
+   rn_pref     = 101000.    !  reference atmospheric pressure   [N/m2]/
+   ln_ref_apr  = .false.    !  ref. pressure: global mean Patm (T) or a constant (F)
+   ln_apr_obc  = .false.    !  inverse barometer added to OBC ssh data
+/
Index: /branches/2015/nemo_v3_6_STABLE/DOC/Namelists/namsbc_clio
===================================================================
--- /branches/2015/nemo_v3_6_STABLE/DOC/Namelists/namsbc_clio	(revision 6992)
+++ /branches/2015/nemo_v3_6_STABLE/DOC/Namelists/namsbc_clio	(revision 6992)
@@ -0,0 +1,15 @@
+!-----------------------------------------------------------------------
+&namsbc_clio   !   namsbc_clio  CLIO bulk formulae
+!-----------------------------------------------------------------------
+!              !  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      !
+   sn_utau     = 'taux_1m'   ,       -1          , 'sozotaux',   .true.     , .true. , 'yearly'  , ''       , ''       , ''
+   sn_vtau     = 'tauy_1m'   ,       -1          , 'sometauy',   .true.     , .true. , 'yearly'  , ''       , ''       , ''
+   sn_wndm     = 'flx'       ,       -1          , 'socliowi',   .true.     , .true. , 'yearly'  , ''       , ''       , ''
+   sn_tair     = 'flx'       ,       -1          , 'socliot2',   .true.     , .true. , 'yearly'  , ''       , ''       , ''
+   sn_humi     = 'flx'       ,       -1          , 'socliohu',   .true.     , .true. , 'yearly'  , ''       , ''       , ''
+   sn_ccov     = 'flx'       ,       -1          , 'socliocl',   .false.    , .true. , 'yearly'  , ''       , ''       , ''
+   sn_prec     = 'flx'       ,       -1          , 'socliopl',   .false.    , .true. , 'yearly'  , ''       , ''       , ''
+
+   cn_dir      = './'      !  root directory for the location of the bulk files are
+/
Index: /branches/2015/nemo_v3_6_STABLE/DOC/Namelists/namsbc_core
===================================================================
--- /branches/2015/nemo_v3_6_STABLE/DOC/Namelists/namsbc_core	(revision 6992)
+++ /branches/2015/nemo_v3_6_STABLE/DOC/Namelists/namsbc_core	(revision 6992)
@@ -0,0 +1,24 @@
+!-----------------------------------------------------------------------
+&namsbc_core   !   namsbc_core  CORE bulk formulae
+!-----------------------------------------------------------------------
+!              !  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      !
+   sn_wndi     = 'u_10.15JUNE2009_fill'        ,         6         , 'U_10_MOD',   .false.    , .true. , 'yearly'  , 'weights_core_orca2_bicubic_noc.nc'   , 'Uwnd'   , ''
+   sn_wndj     = 'v_10.15JUNE2009_fill'        ,         6         , 'V_10_MOD',   .false.    , .true. , 'yearly'  , 'weights_core_orca2_bicubic_noc.nc'   , 'Vwnd'   , ''
+   sn_qsr      = 'ncar_rad.15JUNE2009_fill'    ,        24         , 'SWDN_MOD',   .false.    , .true. , 'yearly'  , 'weights_core_orca2_bilinear_noc.nc'  , ''       , ''
+   sn_qlw      = 'ncar_rad.15JUNE2009_fill'    ,        24         , 'LWDN_MOD',   .false.    , .true. , 'yearly'  , 'weights_core_orca2_bilinear_noc.nc'  , ''       , ''
+   sn_tair     = 't_10.15JUNE2009_fill'        ,         6         , 'T_10_MOD',   .false.    , .true. , 'yearly'  , 'weights_core_orca2_bilinear_noc.nc'  , ''       , ''
+   sn_humi     = 'q_10.15JUNE2009_fill'        ,         6         , 'Q_10_MOD',   .false.    , .true. , 'yearly'  , 'weights_core_orca2_bilinear_noc.nc'  , ''       , ''
+   sn_prec     = 'ncar_precip.15JUNE2009_fill' ,        -1         , 'PRC_MOD1',   .false.    , .true. , 'yearly'  , 'weights_core_orca2_bilinear_noc.nc'  , ''       , ''
+   sn_snow     = 'ncar_precip.15JUNE2009_fill' ,        -1         , 'SNOW'    ,   .false.    , .true. , 'yearly'  , 'weights_core_orca2_bilinear_noc.nc'  , ''       , ''
+   sn_tdif     = 'taudif_core'                 ,        24         , 'taudif'  ,   .false.    , .true. , 'yearly'  , 'weights_core_orca2_bilinear_noc.nc'  , ''       , ''
+
+   cn_dir      = './'      !  root directory for the location of the bulk files
+   ln_taudif   = .false.   !  HF tau contribution: use "mean of stress module - module of the mean stress" data
+   rn_zqt      = 10.        !  Air temperature and humidity reference height (m)
+   rn_zu       = 10.        !  Wind vector reference height (m)
+   rn_pfac     = 1.        !  multiplicative factor for precipitation (total & snow)
+   rn_efac     = 1.        !  multiplicative factor for evaporation (0. or 1.)
+   rn_vfac     = 0.        !  multiplicative factor for ocean/ice velocity
+                           !  in the calculation of the wind stress (0.=absolute winds or 1.=relative winds)
+/
Index: /branches/2015/nemo_v3_6_STABLE/DOC/Namelists/namsbc_cpl
===================================================================
--- /branches/2015/nemo_v3_6_STABLE/DOC/Namelists/namsbc_cpl	(revision 6992)
+++ /branches/2015/nemo_v3_6_STABLE/DOC/Namelists/namsbc_cpl	(revision 6992)
@@ -0,0 +1,27 @@
+!-----------------------------------------------------------------------
+&namsbc_cpl    !   coupled ocean/atmosphere model                       ("key_oasis3")
+!-----------------------------------------------------------------------
+!                    !     description       !  multiple  !    vector   !      vector          ! vector !
+!                    !                       ! categories !  reference  !    orientation       ! grids  !
+! send
+   sn_snd_temp   =       'weighted oce and ice' ,    'no'    ,     ''      ,         ''           ,   ''
+   sn_snd_alb    =       'weighted ice'         ,    'no'    ,     ''      ,         ''           ,   ''
+   sn_snd_thick  =       'none'                 ,    'no'   ,     ''      ,         ''           ,   ''
+   sn_snd_crt    =       'none'                 ,    'no'    , 'spherical' , 'eastward-northward' ,  'T'
+   sn_snd_co2    =       'coupled'              ,    'no'    ,     ''      ,         ''           ,   ''
+! receive
+   sn_rcv_w10m   =       'none'                 ,    'no'    ,     ''      ,         ''          ,   ''
+   sn_rcv_taumod =       'coupled'              ,    'no'    ,     ''      ,         ''          ,   ''
+   sn_rcv_tau    =       'oce only'             ,    'no'    , 'cartesian' , 'eastward-northward',  'U,V'
+   sn_rcv_dqnsdt =       'coupled'              ,    'no'    ,     ''      ,         ''          ,   ''
+   sn_rcv_qsr    =       'oce and ice'          ,    'no'    ,     ''      ,         ''          ,   ''
+   sn_rcv_qns    =       'oce and ice'          ,    'no'    ,     ''      ,         ''          ,   ''
+   sn_rcv_emp    =       'conservative'         ,    'no'    ,     ''      ,         ''          ,   ''
+   sn_rcv_rnf    =       'coupled'              ,    'no'    ,     ''      ,         ''          ,   ''
+   sn_rcv_cal    =       'coupled'              ,    'no'    ,     ''      ,         ''          ,   ''
+   sn_rcv_co2    =       'coupled'              ,    'no'    ,     ''      ,         ''          ,   ''
+!
+   nn_cplmodel   =     1     !  Maximum number of models to/from which NEMO is potentialy sending/receiving data
+   ln_usecplmask = .false.   !  use a coupling mask file to merge data received from several models
+                             !   -> file cplmask.nc with the float variable called cplmask (jpi,jpj,nn_cplmodel)
+/
Index: /branches/2015/nemo_v3_6_STABLE/DOC/Namelists/namsbc_flx
===================================================================
--- /branches/2015/nemo_v3_6_STABLE/DOC/Namelists/namsbc_flx	(revision 6992)
+++ /branches/2015/nemo_v3_6_STABLE/DOC/Namelists/namsbc_flx	(revision 6992)
@@ -0,0 +1,13 @@
+!-----------------------------------------------------------------------
+&namsbc_flx    !   surface boundary condition : flux formulation
+!-----------------------------------------------------------------------
+!              !  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      !
+   sn_utau     = 'utau'      ,        24         , 'utau'    , .false.      , .false., 'yearly'  , ''       , ''       , ''
+   sn_vtau     = 'vtau'      ,        24         , 'vtau'    , .false.      , .false., 'yearly'  , ''       , ''       , ''
+   sn_qtot     = 'qtot'      ,        24         , 'qtot'    , .false.      , .false., 'yearly'  , ''       , ''       , ''
+   sn_qsr      = 'qsr'       ,        24         , 'qsr'     , .false.      , .false., 'yearly'  , ''       , ''       , ''
+   sn_emp      = 'emp'       ,        24         , 'emp'     , .false.      , .false., 'yearly'  , ''       , ''       , ''
+
+   cn_dir      = './'      !  root directory for the location of the flux files
+/
Index: /branches/2015/nemo_v3_6_STABLE/DOC/Namelists/namsbc_isf
===================================================================
--- /branches/2015/nemo_v3_6_STABLE/DOC/Namelists/namsbc_isf	(revision 6992)
+++ /branches/2015/nemo_v3_6_STABLE/DOC/Namelists/namsbc_isf	(revision 6992)
@@ -0,0 +1,30 @@
+!-----------------------------------------------------------------------
+&namsbc_isf    !  Top boundary layer (ISF)
+!-----------------------------------------------------------------------
+!              ! file name ! frequency (hours) ! variable ! time interpol. !  clim   ! 'yearly'/ ! weights  ! rotation !
+!              !           !  (if <0  months)  !   name   !    (logical)   !  (T/F)  ! 'monthly' ! filename ! pairing  !
+! nn_isf == 4
+   sn_qisf      = 'rnfisf' ,         -12      ,'sohflisf',    .false.      , .true.  , 'yearly'  ,  ''      ,   ''
+   sn_fwfisf    = 'rnfisf' ,         -12      ,'sowflisf',    .false.      , .true.  , 'yearly'  ,  ''      ,   ''
+! nn_isf == 3
+   sn_rnfisf    = 'runoffs' ,         -12      ,'sofwfisf',    .false.      , .true.  , 'yearly'  ,  ''      ,   ''
+! nn_isf == 2 and 3
+   sn_depmax_isf = 'runoffs' ,       -12        ,'sozisfmax' ,   .false.  , .true.  , 'yearly'  ,  ''      ,   ''
+   sn_depmin_isf = 'runoffs' ,       -12        ,'sozisfmin' ,   .false.  , .true.  , 'yearly'  ,  ''      ,   ''
+! nn_isf == 2
+   sn_Leff_isf = 'rnfisf' ,       0          ,'Leff'         ,   .false.  , .true.  , 'yearly'  ,  ''      ,   ''
+! for all case
+   ln_divisf   = .true.  ! apply isf melting as a mass flux or in the salinity trend. (maybe I should remove this option as for runoff?)
+! only for nn_isf = 1 or 2
+   rn_gammat0  = 1.0e-4   ! gammat coefficient used in blk formula
+   rn_gammas0  = 1.0e-4   ! gammas coefficient used in blk formula
+! only for nn_isf = 1
+   nn_isfblk   =  1       ! 1 ISOMIP ; 2 conservative (3 equation formulation, Jenkins et al. 1991 ??)
+   rn_hisf_tbl =  30.      ! thickness of the top boundary layer           (Losh et al. 2008)
+                          ! 0 => thickness of the tbl = thickness of the first wet cell
+   ln_conserve = .true.   ! conservative case (take into account meltwater advection)
+   nn_gammablk = 1        ! 0 = cst Gammat (= gammat/s)
+                          ! 1 = velocity dependend Gamma (u* * gammat/s)  (Jenkins et al. 2010)
+                          !     if you want to keep the cd as in global config, adjust rn_gammat0 to compensate
+                          ! 2 = velocity and stability dependent Gamma    Holland et al. 1999
+/
Index: /branches/2015/nemo_v3_6_STABLE/DOC/Namelists/namsbc_mfs
===================================================================
--- /branches/2015/nemo_v3_6_STABLE/DOC/Namelists/namsbc_mfs	(revision 6992)
+++ /branches/2015/nemo_v3_6_STABLE/DOC/Namelists/namsbc_mfs	(revision 6992)
@@ -0,0 +1,15 @@
+!-----------------------------------------------------------------------
+&namsbc_mfs   !   namsbc_mfs  MFS bulk formulae
+!-----------------------------------------------------------------------
+!              !  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      !
+   sn_wndi     =   'ecmwf'   ,        6          , 'u10'     ,    .true.    , .false. , 'daily'  ,'bicubic.nc' , ''       , ''
+   sn_wndj     =   'ecmwf'   ,        6          , 'v10'     ,    .true.    , .false. , 'daily'  ,'bicubic.nc' , ''       , ''
+   sn_clc      =   'ecmwf'   ,        6          , 'clc'     ,    .true.    , .false. , 'daily'  ,'bilinear.nc', ''       , ''
+   sn_msl      =   'ecmwf'   ,        6          , 'msl'     ,    .true.    , .false. , 'daily'  ,'bicubic.nc' , ''       , ''
+   sn_tair     =   'ecmwf'   ,        6          , 't2'      ,    .true.    , .false. , 'daily'  ,'bicubic.nc' , ''       , ''
+   sn_rhm      =   'ecmwf'   ,        6          , 'rh'      ,    .true.    , .false. , 'daily'  ,'bilinear.nc', ''       , ''
+   sn_prec     =   'ecmwf'   ,        6          , 'precip'  ,    .true.    , .true.  , 'daily'  ,'bicubic.nc' , ''       , ''
+
+   cn_dir      = './ECMWF/'      !  root directory for the location of the bulk files
+/
Index: /branches/2015/nemo_v3_6_STABLE/DOC/Namelists/namsbc_rnf
===================================================================
--- /branches/2015/nemo_v3_6_STABLE/DOC/Namelists/namsbc_rnf	(revision 6992)
+++ /branches/2015/nemo_v3_6_STABLE/DOC/Namelists/namsbc_rnf	(revision 6992)
@@ -0,0 +1,24 @@
+!-----------------------------------------------------------------------
+&namsbc_rnf    !   runoffs namelist surface boundary condition
+!-----------------------------------------------------------------------
+!              !  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      !
+   sn_rnf      = 'runoff_core_monthly',        -1         , 'sorunoff',   .true.     , .true. , 'yearly'  , ''       , ''       , ''
+   sn_cnf      = 'runoff_core_monthly',         0         , 'socoefr0',   .false.    , .true. , 'yearly'  , ''       , ''       , ''
+   sn_s_rnf    = 'runoffs'            ,        24         , 'rosaline',   .true.     , .true. , 'yearly'  , ''       , ''       , ''
+   sn_t_rnf    = 'runoffs'            ,        24         , 'rotemper',   .true.     , .true. , 'yearly'  , ''       , ''       , ''
+   sn_dep_rnf  = 'runoffs'            ,         0         , 'rodepth' ,   .false.    , .true. , 'yearly'  , ''       , ''       , ''
+
+   cn_dir       = './'      !  root directory for the location of the runoff files
+   ln_rnf_mouth = .true.    !  specific treatment at rivers mouths
+   rn_hrnf      =  15.e0    !  depth over which enhanced vertical mixing is used
+   rn_avt_rnf   =   1.e-3   !  value of the additional vertical mixing coef. [m2/s]
+   rn_rfact     =   1.e0    !  multiplicative factor for runoff
+   ln_rnf_depth = .false.   !  read in depth information for runoff
+   ln_rnf_tem   = .false.   !  read in temperature information for runoff
+   ln_rnf_sal   = .false.   !  read in salinity information for runoff
+   ln_rnf_depth_ini = .false.  ! compute depth at initialisation from runoff file
+   rn_rnf_max   = 5.735e-4  !  max value of the runoff climatologie over global domain ( ln_rnf_depth_ini = .true )
+   rn_dep_max   = 150.      !  depth over which runoffs is spread ( ln_rnf_depth_ini = .true )
+   nn_rnf_depth_file = 0    !  create (=1) a runoff depth file or not (=0)
+/
Index: /branches/2015/nemo_v3_6_STABLE/DOC/Namelists/namsbc_sas
===================================================================
--- /branches/2015/nemo_v3_6_STABLE/DOC/Namelists/namsbc_sas	(revision 6992)
+++ /branches/2015/nemo_v3_6_STABLE/DOC/Namelists/namsbc_sas	(revision 6992)
@@ -0,0 +1,17 @@
+!-----------------------------------------------------------------------
+&namsbc_sas    !   analytical surface boundary condition
+!-----------------------------------------------------------------------
+!              !  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      !
+   sn_usp      = 'sas_grid_U' ,    120           , 'vozocrtx' ,  .true.    , .true. ,   'yearly'  , ''       , ''             , ''
+   sn_vsp      = 'sas_grid_V' ,    120           , 'vomecrty' ,  .true.    , .true. ,   'yearly'  , ''       , ''             , ''
+   sn_tem      = 'sas_grid_T' ,    120           , 'sosstsst' ,  .true.    , .true. ,   'yearly'  , ''       , ''             , ''
+   sn_sal      = 'sas_grid_T' ,    120           , 'sosaline' ,  .true.    , .true. ,   'yearly'  , ''       , ''             , ''
+   sn_ssh      = 'sas_grid_T' ,    120           , 'sossheig' ,  .true.    , .true. ,   'yearly'  , ''       , ''             , ''
+   sn_e3t      = 'sas_grid_T' ,    120           , 'e3t_m'    ,  .true.    , .true. ,   'yearly'  , ''       , ''             , ''
+   sn_frq      = 'sas_grid_T' ,    120           , 'frq_m'    ,  .true.    , .true. ,   'yearly'  , ''       , ''             , ''
+
+   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
+   cn_dir      = './'      !  root directory for the location of the bulk files are
+/
Index: /branches/2015/nemo_v3_6_STABLE/DOC/Namelists/namsbc_ssr
===================================================================
--- /branches/2015/nemo_v3_6_STABLE/DOC/Namelists/namsbc_ssr	(revision 6992)
+++ /branches/2015/nemo_v3_6_STABLE/DOC/Namelists/namsbc_ssr	(revision 6992)
@@ -0,0 +1,17 @@
+!-----------------------------------------------------------------------
+&namsbc_ssr    !   surface boundary condition : sea surface restoring
+!-----------------------------------------------------------------------
+!              !  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      !
+   sn_sst      = 'sst_data'  ,        24         ,  'sst'    ,    .false.   , .false., 'yearly'  , ''       , ''       , ''
+   sn_sss      = 'sss_data'  ,        -1         ,  'sss'    ,    .true.    , .true. , 'yearly'  , ''       , ''       , ''
+
+   cn_dir      = './'      !  root directory for the location of the runoff files
+   nn_sstr     =     0     !  add a retroaction term in the surface heat       flux (=1) or not (=0)
+   nn_sssr     =     2     !  add a damping     term in the surface freshwater flux (=2)
+                           !  or to SSS only (=1) or no damping term (=0)
+   rn_dqdt     =   -40.    !  magnitude of the retroaction on temperature   [W/m2/K]
+   rn_deds     =  -166.67  !  magnitude of the damping on salinity   [mm/day]
+   ln_sssr_bnd =   .true.  !  flag to bound erp term (associated with nn_sssr=2)
+   rn_sssr_bnd =   4.e0    !  ABS(Max/Min) value of the damping erp term [mm/day]
+/
Index: /branches/2015/nemo_v3_6_STABLE/DOC/Namelists/namsbc_wave
===================================================================
--- /branches/2015/nemo_v3_6_STABLE/DOC/Namelists/namsbc_wave	(revision 6992)
+++ /branches/2015/nemo_v3_6_STABLE/DOC/Namelists/namsbc_wave	(revision 6992)
@@ -0,0 +1,12 @@
+!-----------------------------------------------------------------------
+&namsbc_wave   ! External fields from wave model
+!-----------------------------------------------------------------------
+!              !  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      !
+   sn_cdg      =  'cdg_wave' ,        1          , 'drag_coeff' ,     .true.   , .false. , 'daily'   ,  ''      , ''       , ''
+   sn_usd      =  'sdw_wave' ,        1          , 'u_sd2d'     ,     .true.   , .false. , 'daily'   ,  ''      , ''       , ''
+   sn_vsd      =  'sdw_wave' ,        1          , 'v_sd2d'     ,     .true.   , .false. , 'daily'   ,  ''      , ''       , ''
+   sn_wn       =  'sdw_wave' ,        1          , 'wave_num'   ,     .true.   , .false. , 'daily'   ,  ''      , ''       , ''
+!
+   cn_dir_cdg  = './'  !  root directory for the location of drag coefficient files
+/
Index: /branches/2015/nemo_v3_6_STABLE/DOC/Namelists/namsol
===================================================================
--- /branches/2015/nemo_v3_6_STABLE/DOC/Namelists/namsol	(revision 6992)
+++ /branches/2015/nemo_v3_6_STABLE/DOC/Namelists/namsol	(revision 6992)
@@ -0,0 +1,13 @@
+!-----------------------------------------------------------------------
+&namsol        !   elliptic solver / island / free surface
+!-----------------------------------------------------------------------
+   nn_solv     =      1    !  elliptic solver: =1 preconditioned conjugate gradient (pcg)
+                           !                   =2 successive-over-relaxation (sor)
+   nn_sol_arp  =      0    !  absolute/relative (0/1) precision convergence test
+   rn_eps      =  1.e-6    !  absolute precision of the solver
+   nn_nmin     =    300    !  minimum of iterations for the SOR solver
+   nn_nmax     =    800    !  maximum of iterations for the SOR solver
+   nn_nmod     =     10    !  frequency of test for the SOR solver
+   rn_resmax   =  1.e-10   !  absolute precision for the SOR solver
+   rn_sor      =  1.92     !  optimal coefficient for SOR solver (to be adjusted with the domain)
+/
Index: /branches/2015/nemo_v3_6_STABLE/DOC/Namelists/namsplit
===================================================================
--- /branches/2015/nemo_v3_6_STABLE/DOC/Namelists/namsplit	(revision 6992)
+++ /branches/2015/nemo_v3_6_STABLE/DOC/Namelists/namsplit	(revision 6992)
@@ -0,0 +1,15 @@
+!-----------------------------------------------------------------------
+&namsplit      !   time splitting parameters                            ("key_dynspg_ts")
+!-----------------------------------------------------------------------
+   ln_bt_fw      =    .TRUE.           !  Forward integration of barotropic equations
+   ln_bt_av      =    .TRUE.           !  Time filtering of barotropic variables
+   ln_bt_nn_auto =    .TRUE.           !  Set nn_baro automatically to be just below
+                                       !  a user defined maximum courant number (rn_bt_cmax)
+   nn_baro       =    30               !  Number of iterations of barotropic mode
+                                       !  during rn_rdt seconds. Only used if ln_bt_nn_auto=F
+   rn_bt_cmax    =    0.8              !  Maximum courant number allowed if ln_bt_nn_auto=T
+   nn_bt_flt     =    1                !  Time filter choice
+                                       !  = 0 None
+                                       !  = 1 Boxcar over   nn_baro barotropic steps
+                                       !  = 2 Boxcar over 2*nn_baro     "        "
+/
Index: /branches/2015/nemo_v3_6_STABLE/DOC/Namelists/namsto
===================================================================
--- /branches/2015/nemo_v3_6_STABLE/DOC/Namelists/namsto	(revision 6992)
+++ /branches/2015/nemo_v3_6_STABLE/DOC/Namelists/namsto	(revision 6992)
@@ -0,0 +1,17 @@
+!-----------------------------------------------------------------------
+&namsto       ! Stochastic parametrization of EOS
+!-----------------------------------------------------------------------
+   ln_rststo = .false.           ! start from mean parameter (F) or from restart file (T)
+   ln_rstseed = .true.           ! read seed of RNG from restart file
+   cn_storst_in  = "restart_sto" !  suffix of stochastic parameter restart file (input)
+   cn_storst_out = "restart_sto" !  suffix of stochastic parameter restart file (output)
+
+   ln_sto_eos = .false.          ! stochastic equation of state
+   nn_sto_eos = 1                ! number of independent random walks
+   rn_eos_stdxy = 1.4            ! random walk horz. standard deviation (in grid points)
+   rn_eos_stdz  = 0.7            ! random walk vert. standard deviation (in grid points)
+   rn_eos_tcor  = 1440.0         ! random walk time correlation (in timesteps)
+   nn_eos_ord  = 1               ! order of autoregressive processes
+   nn_eos_flt  = 0               ! passes of Laplacian filter
+   rn_eos_lim  = 2.0             ! limitation factor (default = 3.0)
+/
Index: /branches/2015/nemo_v3_6_STABLE/DOC/Namelists/namtra_adv
===================================================================
--- /branches/2015/nemo_v3_6_STABLE/DOC/Namelists/namtra_adv	(revision 6992)
+++ /branches/2015/nemo_v3_6_STABLE/DOC/Namelists/namtra_adv	(revision 6992)
@@ -0,0 +1,12 @@
+!-----------------------------------------------------------------------
+&namtra_adv    !   advection scheme for tracer
+!-----------------------------------------------------------------------
+   ln_traadv_cen2   =  .false.   !  2nd order centered scheme
+   ln_traadv_tvd    =  .true.    !  TVD scheme
+   ln_traadv_muscl  =  .false.   !  MUSCL scheme
+   ln_traadv_muscl2 =  .false.   !  MUSCL2 scheme + cen2 at boundaries
+   ln_traadv_ubs    =  .false.   !  UBS scheme
+   ln_traadv_qck    =  .false.   !  QUICKEST scheme
+   ln_traadv_msc_ups=  .false.   !  use upstream scheme within muscl
+   ln_traadv_tvd_zts=  .false.  !  TVD scheme with sub-timestepping of vertical tracer advection
+/
Index: /branches/2015/nemo_v3_6_STABLE/DOC/Namelists/namtra_adv_mle
===================================================================
--- /branches/2015/nemo_v3_6_STABLE/DOC/Namelists/namtra_adv_mle	(revision 6992)
+++ /branches/2015/nemo_v3_6_STABLE/DOC/Namelists/namtra_adv_mle	(revision 6992)
@@ -0,0 +1,13 @@
+!-----------------------------------------------------------------------
+&namtra_adv_mle !   mixed layer eddy parametrisation (Fox-Kemper param)
+!-----------------------------------------------------------------------
+   ln_mle    = .true.      ! (T) use the Mixed Layer Eddy (MLE) parameterisation
+   rn_ce     = 0.06        ! magnitude of the MLE (typical value: 0.06 to 0.08)
+   nn_mle    = 1           ! MLE type: =0 standard Fox-Kemper ; =1 new formulation
+   rn_lf     = 5.e+3       ! typical scale of mixed layer front (meters)                      (case rn_mle=0)
+   rn_time   = 172800.     ! time scale for mixing momentum across the mixed layer (seconds)  (case rn_mle=0)
+   rn_lat    = 20.         ! reference latitude (degrees) of MLE coef.                        (case rn_mle=1)
+   nn_mld_uv = 0           ! space interpolation of MLD at u- & v-pts (0=min,1=averaged,2=max)
+   nn_conv   = 0           ! =1 no MLE in case of convection ; =0 always MLE
+   rn_rho_c_mle  = 0.01    ! delta rho criterion used to calculate MLD for FK
+/
Index: /branches/2015/nemo_v3_6_STABLE/DOC/Namelists/namtra_dmp
===================================================================
--- /branches/2015/nemo_v3_6_STABLE/DOC/Namelists/namtra_dmp	(revision 6992)
+++ /branches/2015/nemo_v3_6_STABLE/DOC/Namelists/namtra_dmp	(revision 6992)
@@ -0,0 +1,9 @@
+!-----------------------------------------------------------------------
+&namtra_dmp    !   tracer: T & S newtonian damping
+!-----------------------------------------------------------------------
+   ln_tradmp   =  .true.   !  add a damping termn (T) or not (F)
+   nn_zdmp     =    0      !  vertical   shape =0    damping throughout the water column
+                           !                   =1 no damping in the mixing layer (kz  criteria)
+                           !                   =2 no damping in the mixed  layer (rho crieria)
+   cn_resto    = 'resto.nc' ! Name of file containing restoration coefficient field (use dmp_tools to create this)
+/
Index: /branches/2015/nemo_v3_6_STABLE/DOC/Namelists/namtra_ldf
===================================================================
--- /branches/2015/nemo_v3_6_STABLE/DOC/Namelists/namtra_ldf	(revision 6992)
+++ /branches/2015/nemo_v3_6_STABLE/DOC/Namelists/namtra_ldf	(revision 6992)
@@ -0,0 +1,28 @@
+!----------------------------------------------------------------------------------
+&namtra_ldf    !   lateral diffusion scheme for tracers
+!----------------------------------------------------------------------------------
+   !                       !  Operator type:
+   ln_traldf_lap    =  .true.   !  laplacian operator
+   ln_traldf_bilap  =  .false.  !  bilaplacian operator
+   !                       !  Direction of action:
+   ln_traldf_level  =  .false.  !  iso-level
+   ln_traldf_hor    =  .false.  !  horizontal (geopotential)   (needs "key_ldfslp" when ln_sco=T)
+   ln_traldf_iso    =  .true.   !  iso-neutral                 (needs "key_ldfslp")
+   !		       	   !  Griffies parameters              (all need "key_ldfslp")
+   ln_traldf_grif   =  .false.  !  use griffies triads
+   ln_traldf_gdia   =  .false.  !  output griffies eddy velocities
+   ln_triad_iso     =  .false.  !  pure lateral mixing in ML
+   ln_botmix_grif   =  .false.  !  lateral mixing on bottom
+   !                       !  Coefficients
+   ! Eddy-induced (GM) advection always used with Griffies; otherwise needs "key_traldf_eiv"
+   ! Value rn_aeiv_0 is ignored unless = 0 with Held-Larichev spatially varying aeiv
+   !                                  (key_traldf_c2d & key_traldf_eiv & key_orca_r2, _r1 or _r05)
+   rn_aeiv_0        =  2000.    !  eddy induced velocity coefficient [m2/s]
+   rn_aht_0         =  2000.    !  horizontal eddy diffusivity for tracers [m2/s]
+   rn_ahtb_0        =     0.    !  background eddy diffusivity for ldf_iso [m2/s]
+   !                                           (normally=0; not used with Griffies)
+   rn_slpmax        =     0.01  !  slope limit
+   rn_chsmag        =     1.    !  multiplicative factor in Smagorinsky diffusivity
+   rn_smsh          =     1.    !  Smagorinsky diffusivity: = 0 - use only sheer
+   rn_aht_m         =  2000.    !  upper limit or stability criteria for lateral eddy diffusivity (m2/s)
+/
Index: /branches/2015/nemo_v3_6_STABLE/DOC/Namelists/namtra_qsr
===================================================================
--- /branches/2015/nemo_v3_6_STABLE/DOC/Namelists/namtra_qsr	(revision 6992)
+++ /branches/2015/nemo_v3_6_STABLE/DOC/Namelists/namtra_qsr	(revision 6992)
@@ -0,0 +1,18 @@
+!-----------------------------------------------------------------------
+&namtra_qsr    !   penetrative solar radiation
+!-----------------------------------------------------------------------
+!              !  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      !
+   sn_chl      ='chlorophyll',        -1         , 'CHLA'    ,   .true.     , .true. , 'yearly'  , ''       , ''       , ''
+
+   cn_dir      = './'      !  root directory for the location of the runoff files
+   ln_traqsr   = .true.    !  Light penetration (T) or not (F)
+   ln_qsr_rgb  = .true.    !  RGB (Red-Green-Blue) light penetration
+   ln_qsr_2bd  = .false.   !  2 bands              light penetration
+   ln_qsr_bio  = .false.   !  bio-model light penetration
+   nn_chldta   =      1    !  RGB : 2D Chl data (=1), 3D Chl data (=2) or cst value (=0)
+   rn_abs      =   0.58    !  RGB & 2 bands: fraction of light (rn_si1)
+   rn_si0      =   0.35    !  RGB & 2 bands: shortess depth of extinction
+   rn_si1      =   23.0    !  2 bands: longest depth of extinction
+   ln_qsr_ice  = .true.    !  light penetration for ice-model LIM3
+/
Index: /branches/2015/nemo_v3_6_STABLE/DOC/Namelists/namtrd
===================================================================
--- /branches/2015/nemo_v3_6_STABLE/DOC/Namelists/namtrd	(revision 6992)
+++ /branches/2015/nemo_v3_6_STABLE/DOC/Namelists/namtrd	(revision 6992)
@@ -0,0 +1,14 @@
+!-----------------------------------------------------------------------
+&namtrd        !   diagnostics on dynamics and/or tracer trends
+!              !       and/or mixed-layer trends and/or barotropic vorticity
+!-----------------------------------------------------------------------
+   ln_glo_trd  = .false.   ! (T) global domain averaged diag for T, T^2, KE, and PE
+   ln_dyn_trd  = .false.   ! (T) 3D momentum trend output
+   ln_dyn_mxl  = .FALSE.   ! (T) 2D momentum trends averaged over the mixed layer (not coded yet)
+   ln_vor_trd  = .FALSE.   ! (T) 2D barotropic vorticity trends (not coded yet)
+   ln_KE_trd   = .false.   ! (T) 3D Kinetic   Energy     trends
+   ln_PE_trd   = .false.   ! (T) 3D Potential Energy     trends
+   ln_tra_trd  = .FALSE.   ! (T) 3D tracer trend output
+   ln_tra_mxl  = .false.   ! (T) 2D tracer trends averaged over the mixed layer (not coded yet)
+   nn_trd      = 365       !  print frequency (ln_glo_trd=T) (unit=time step)
+/
Index: /branches/2015/nemo_v3_6_STABLE/DOC/Namelists/namtsd
===================================================================
--- /branches/2015/nemo_v3_6_STABLE/DOC/Namelists/namtsd	(revision 6992)
+++ /branches/2015/nemo_v3_6_STABLE/DOC/Namelists/namtsd	(revision 6992)
@@ -0,0 +1,13 @@
+!-----------------------------------------------------------------------
+&namtsd    !   data : Temperature  & Salinity
+!-----------------------------------------------------------------------
+!-----------------------------------------------------------------------
+!          !  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      !
+   sn_tem  = 'data_1m_potential_temperature_nomask',         -1        ,'votemper' ,    .true.    , .true. , 'yearly'   , ''       ,   ''    ,    ''
+   sn_sal  = 'data_1m_salinity_nomask'             ,         -1        ,'vosaline' ,    .true.    , .true. , 'yearly'   , ''       ,   ''    ,    ''
+   !
+   cn_dir        = './'     !  root directory for the location of the runoff files
+   ln_tsd_init   = .true.   !  Initialisation of ocean T & S with T &S input data (T) or not (F)
+   ln_tsd_tradmp = .true.   !  damping of ocean T & S toward T &S input data (T) or not (F)
+/
Index: /branches/2015/nemo_v3_6_STABLE/DOC/Namelists/namzdf
===================================================================
--- /branches/2015/nemo_v3_6_STABLE/DOC/Namelists/namzdf	(revision 6992)
+++ /branches/2015/nemo_v3_6_STABLE/DOC/Namelists/namzdf	(revision 6992)
@@ -0,0 +1,16 @@
+!-----------------------------------------------------------------------
+&namzdf        !   vertical physics
+!-----------------------------------------------------------------------
+   rn_avm0     =   1.2e-4  !  vertical eddy viscosity   [m2/s]          (background Kz if not "key_zdfcst")
+   rn_avt0     =   1.2e-5  !  vertical eddy diffusivity [m2/s]          (background Kz if not "key_zdfcst")
+   nn_avb      =    0      !  profile for background avt & avm (=1) or not (=0)
+   nn_havtb    =    0      !  horizontal shape for avtb (=1) or not (=0)
+   ln_zdfevd   = .true.    !  enhanced vertical diffusion (evd) (T) or not (F)
+   nn_evdm     =    0      !  evd apply on tracer (=0) or on tracer and momentum (=1)
+   rn_avevd    =  100.     !  evd mixing coefficient [m2/s]
+   ln_zdfnpc   = .false.   !  Non-Penetrative Convective algorithm (T) or not (F)
+   nn_npc      =    1            !  frequency of application of npc
+   nn_npcp     =  365            !  npc control print frequency
+   ln_zdfexp   = .false.   !  time-stepping: split-explicit (T) or implicit (F) time stepping
+   nn_zdfexp   =    3            !  number of sub-timestep for ln_zdfexp=T
+/
Index: /branches/2015/nemo_v3_6_STABLE/DOC/Namelists/namzdf_ddm
===================================================================
--- /branches/2015/nemo_v3_6_STABLE/DOC/Namelists/namzdf_ddm	(revision 6992)
+++ /branches/2015/nemo_v3_6_STABLE/DOC/Namelists/namzdf_ddm	(revision 6992)
@@ -0,0 +1,6 @@
+!-----------------------------------------------------------------------
+&namzdf_ddm    !   double diffusive mixing parameterization             ("key_zdfddm")
+!-----------------------------------------------------------------------
+   rn_avts     = 1.e-4     !  maximum avs (vertical mixing on salinity)
+   rn_hsbfr    = 1.6       !  heat/salt buoyancy flux ratio
+/
Index: /branches/2015/nemo_v3_6_STABLE/DOC/Namelists/namzdf_gls
===================================================================
--- /branches/2015/nemo_v3_6_STABLE/DOC/Namelists/namzdf_gls	(revision 6992)
+++ /branches/2015/nemo_v3_6_STABLE/DOC/Namelists/namzdf_gls	(revision 6992)
@@ -0,0 +1,18 @@
+!-----------------------------------------------------------------------
+&namzdf_gls                !   GLS vertical diffusion                   ("key_zdfgls")
+!-----------------------------------------------------------------------
+   rn_emin       = 1.e-7   !  minimum value of e   [m2/s2]
+   rn_epsmin     = 1.e-12  !  minimum value of eps [m2/s3]
+   ln_length_lim = .true.  !  limit on the dissipation rate under stable stratification (Galperin et al., 1988)
+   rn_clim_galp  = 0.267   !  galperin limit
+   ln_sigpsi     = .true.  !  Activate or not Burchard 2001 mods on psi schmidt number in the wb case
+   rn_crban      = 100.    !  Craig and Banner 1994 constant for wb tke flux
+   rn_charn      = 70000.  !  Charnock constant for wb induced roughness length
+   rn_hsro       =  0.02   !  Minimum surface roughness
+   rn_frac_hs    =   1.3   !  Fraction of wave height as roughness (if nn_z0_met=2)
+   nn_z0_met     =     2   !  Method for surface roughness computation (0/1/2)
+   nn_bc_surf    =     1   !  surface condition (0/1=Dir/Neum)
+   nn_bc_bot     =     1   !  bottom condition (0/1=Dir/Neum)
+   nn_stab_func  =     2   !  stability function (0=Galp, 1= KC94, 2=CanutoA, 3=CanutoB)
+   nn_clos       =     1   !  predefined closure type (0=MY82, 1=k-eps, 2=k-w, 3=Gen)
+/
Index: /branches/2015/nemo_v3_6_STABLE/DOC/Namelists/namzdf_kpp
===================================================================
--- /branches/2015/nemo_v3_6_STABLE/DOC/Namelists/namzdf_kpp	(revision 6992)
+++ /branches/2015/nemo_v3_6_STABLE/DOC/Namelists/namzdf_kpp	(revision 6992)
@@ -0,0 +1,13 @@
+!------------------------------------------------------------------------
+&namzdf_kpp    !   K-Profile Parameterization dependent vertical mixing  ("key_zdfkpp", and optionally:
+!------------------------------------------------------------------------ "key_kppcustom" or "key_kpplktb")
+   ln_kpprimix = .true.    !  shear instability mixing
+   rn_difmiw   =  1.0e-04  !  constant internal wave viscosity [m2/s]
+   rn_difsiw   =  0.1e-04  !  constant internal wave diffusivity [m2/s]
+   rn_riinfty  =  0.8      !  local Richardson Number limit for shear instability
+   rn_difri    =  0.0050   !  maximum shear mixing at Rig = 0    [m2/s]
+   rn_bvsqcon  = -0.01e-07 !  Brunt-Vaisala squared for maximum convection [1/s2]
+   rn_difcon   =  1.       !  maximum mixing in interior convection [m2/s]
+   nn_avb      =  0        !  horizontal averaged (=1) or not (=0) on avt and amv
+   nn_ave      =  1        !  constant (=0) or profile (=1) background on avt
+/
Index: /branches/2015/nemo_v3_6_STABLE/DOC/Namelists/namzdf_ric
===================================================================
--- /branches/2015/nemo_v3_6_STABLE/DOC/Namelists/namzdf_ric	(revision 6992)
+++ /branches/2015/nemo_v3_6_STABLE/DOC/Namelists/namzdf_ric	(revision 6992)
@@ -0,0 +1,13 @@
+!-----------------------------------------------------------------------
+&namzdf_ric    !   richardson number dependent vertical diffusion       ("key_zdfric" )
+!-----------------------------------------------------------------------
+   rn_avmri    = 100.e-4   !  maximum value of the vertical viscosity
+   rn_alp      =   5.      !  coefficient of the parameterization
+   nn_ric      =   2       !  coefficient of the parameterization
+   rn_ekmfc    =   0.7     !  Factor in the Ekman depth Equation
+   rn_mldmin   =   1.0     !  minimum allowable mixed-layer depth estimate (m)
+   rn_mldmax   =1000.0     !  maximum allowable mixed-layer depth estimate (m)
+   rn_wtmix    =  10.0     !  vertical eddy viscosity coeff [m2/s] in the mixed-layer
+   rn_wvmix    =  10.0     !  vertical eddy diffusion coeff [m2/s] in the mixed-layer
+   ln_mldw     = .true.    !  Flag to use or not the mized layer depth param.
+/
Index: /branches/2015/nemo_v3_6_STABLE/DOC/Namelists/namzdf_tke
===================================================================
--- /branches/2015/nemo_v3_6_STABLE/DOC/Namelists/namzdf_tke	(revision 6992)
+++ /branches/2015/nemo_v3_6_STABLE/DOC/Namelists/namzdf_tke	(revision 6992)
@@ -0,0 +1,28 @@
+!-----------------------------------------------------------------------
+&namzdf_tke    !   turbulent eddy kinetic dependent vertical diffusion  ("key_zdftke")
+!-----------------------------------------------------------------------
+   rn_ediff    =   0.1     !  coef. for vertical eddy coef. (avt=rn_ediff*mxl*sqrt(e) )
+   rn_ediss    =   0.7     !  coef. of the Kolmogoroff dissipation
+   rn_ebb      =  67.83    !  coef. of the surface input of tke (=67.83 suggested when ln_mxl0=T)
+   rn_emin     =   1.e-6   !  minimum value of tke [m2/s2]
+   rn_emin0    =   1.e-4   !  surface minimum value of tke [m2/s2]
+   rn_bshear   =   1.e-20  ! background shear (>0) currently a numerical threshold (do not change it)
+   nn_mxl      =   2       !  mixing length: = 0 bounded by the distance to surface and bottom
+                           !                 = 1 bounded by the local vertical scale factor
+                           !                 = 2 first vertical derivative of mixing length bounded by 1
+                           !                 = 3 as =2 with distinct disspipative an mixing length scale
+   nn_pdl      =   1       !  Prandtl number function of richarson number (=1, avt=pdl(Ri)*avm) or not (=0, avt=avm)
+   ln_mxl0     = .true.    !  surface mixing length scale = F(wind stress) (T) or not (F)
+   rn_mxl0     =   0.04    !  surface  buoyancy lenght scale minimum value
+   ln_lc       = .true.    !  Langmuir cell parameterisation (Axell 2002)
+   rn_lc       =   0.15    !  coef. associated to Langmuir cells
+   nn_etau     =   1       !  penetration of tke below the mixed layer (ML) due to internal & intertial waves
+                           !        = 0 no penetration
+                           !        = 1 add a tke source below the ML
+                           !        = 2 add a tke source just at the base of the ML
+                           !        = 3 as = 1 applied on HF part of the stress    ("key_oasis3")
+   rn_efr      =   0.05    !  fraction of surface tke value which penetrates below the ML (nn_etau=1 or 2)
+   nn_htau     =   1       !  type of exponential decrease of tke penetration below the ML
+                           !        = 0  constant 10 m length scale
+                           !        = 1  0.5m at the equator to 30m poleward of 40 degrees
+/
Index: /branches/2015/nemo_v3_6_STABLE/DOC/Namelists/namzdf_tmx
===================================================================
--- /branches/2015/nemo_v3_6_STABLE/DOC/Namelists/namzdf_tmx	(revision 6992)
+++ /branches/2015/nemo_v3_6_STABLE/DOC/Namelists/namzdf_tmx	(revision 6992)
@@ -0,0 +1,10 @@
+!-----------------------------------------------------------------------
+&namzdf_tmx    !   tidal mixing parameterization                        ("key_zdftmx")
+!-----------------------------------------------------------------------
+   rn_htmx     = 500.      !  vertical decay scale for turbulence (meters)
+   rn_n2min    = 1.e-8     !  threshold of the Brunt-Vaisala frequency (s-1)
+   rn_tfe      = 0.333     !  tidal dissipation efficiency
+   rn_me       = 0.2       !  mixing efficiency
+   ln_tmx_itf  = .true.    !  ITF specific parameterisation
+   rn_tfe_itf  = 1.        !  ITF tidal dissipation efficiency
+/
Index: /branches/2015/nemo_v3_6_STABLE/DOC/Namelists/namzgr
===================================================================
--- /branches/2015/nemo_v3_6_STABLE/DOC/Namelists/namzgr	(revision 6992)
+++ /branches/2015/nemo_v3_6_STABLE/DOC/Namelists/namzgr	(revision 6992)
@@ -0,0 +1,8 @@
+!-----------------------------------------------------------------------
+&namzgr        !   vertical coordinate
+!-----------------------------------------------------------------------
+   ln_zco      = .false.   !  z-coordinate - full    steps   (T/F)      ("key_zco" may also be defined)
+   ln_zps      = .true.    !  z-coordinate - partial steps   (T/F)
+   ln_sco      = .false.   !  s- or hybrid z-s-coordinate    (T/F)
+   ln_isfcav   = .false.   !  ice shelf cavity               (T/F)
+/
Index: /branches/2015/nemo_v3_6_STABLE/DOC/Namelists/namzgr_sco
===================================================================
--- /branches/2015/nemo_v3_6_STABLE/DOC/Namelists/namzgr_sco	(revision 6992)
+++ /branches/2015/nemo_v3_6_STABLE/DOC/Namelists/namzgr_sco	(revision 6992)
@@ -0,0 +1,25 @@
+!-----------------------------------------------------------------------
+&namzgr_sco    !   s-coordinate or hybrid z-s-coordinate
+!-----------------------------------------------------------------------
+   ln_s_sh94   = .true.    !  Song & Haidvogel 1994 hybrid S-sigma   (T)|
+   ln_s_sf12   = .false.   !  Siddorn & Furner 2012 hybrid S-z-sigma (T)| if both are false the NEMO tanh stretching is applied
+   ln_sigcrit  = .false.   !  use sigma coordinates below critical depth (T) or Z coordinates (F) for Siddorn & Furner stretch
+                           !  stretching coefficients for all functions
+   rn_sbot_min =   10.0    !  minimum depth of s-bottom surface (>0) (m)
+   rn_sbot_max = 7000.0    !  maximum depth of s-bottom surface (= ocean depth) (>0) (m)
+   rn_hc       =  150.0    !  critical depth for transition to stretched coordinates
+                        !!!!!!!  Envelop bathymetry
+   rn_rmax     =    0.3    !  maximum cut-off r-value allowed (0<r_max<1)
+                        !!!!!!!  SH94 stretching coefficients  (ln_s_sh94 = .true.)
+   rn_theta    =    6.0    !  surface control parameter (0<=theta<=20)
+   rn_bb       =    0.8    !  stretching with SH94 s-sigma
+                        !!!!!!!  SF12 stretching coefficient  (ln_s_sf12 = .true.)
+   rn_alpha    =    4.4    !  stretching with SF12 s-sigma
+   rn_efold    =    0.0    !  efold length scale for transition to stretched coord
+   rn_zs       =    1.0    !  depth of surface grid box
+                           !  bottom cell depth (Zb) is a linear function of water depth Zb = H*a + b
+   rn_zb_a     =    0.024  !  bathymetry scaling factor for calculating Zb
+   rn_zb_b     =   -0.2    !  offset for calculating Zb
+                        !!!!!!!! Other stretching (not SH94 or SF12) [also uses rn_theta above]
+   rn_thetb    =    1.0    !  bottom control parameter  (0<=thetb<= 1)
+/
Index: /branches/2015/nemo_v3_6_STABLE/DOC/TexFiles/Bibliography/Biblio.bib
===================================================================
--- /branches/2015/nemo_v3_6_STABLE/DOC/TexFiles/Bibliography/Biblio.bib	(revision 6992)
+++ /branches/2015/nemo_v3_6_STABLE/DOC/TexFiles/Bibliography/Biblio.bib	(revision 6992)
@@ -0,0 +1,3371 @@
+This file was created with JabRef 2.2.
+Encoding: UTF8
+
+@STRING{AP = {Academic Press}}
+
+@STRING{AREPS = {Annual Review of Earth Planetary Science}}
+
+@STRING{ARFM = {Annual Review of Fluid Mechanics}}
+
+@STRING{ASL = {Atmospheric Science Letters}}
+
+@STRING{AW = {Addison-Wesley}}
+
+@STRING{CP = {Clarendon Press}}
+
+@STRING{CD = {Clim. Dyn.}}
+
+@STRING{CUP = {Cambridge University Press}}
+
+@STRING{CSR = {Cont. Shelf Res.}}
+
+@STRING{D = {Dover Publications}}
+
+@STRING{DAO = {Dyn. Atmos. Ocean}}
+
+@STRING{DSR = {Deep-Sea Res.}}
+
+@STRING{E = {Eyrolles}}
+
+@STRING{EFM ={Environ. Fluid Mech.}}
+
+@STRING{GRL = {Geophys. Res. Let.}}
+
+@STRING{I = {Interscience}}
+
+@STRING{JAOT = {J. Atmos. Ocean Tech.}}
+
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+
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+
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+@STRING{JMR = {J. Mar. Res.}}
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+
+@STRING{JWS = {John Wiley and Sons}}
+
+@STRING{M = {Macmillan}}
+
+@STRING{MGH = {McGraw-Hill}}
+
+@STRING{MWR = {Mon. Wea. Rev.}}
+
+@STRING{Nature = {Nat.}}
+
+@STRING{NH = {North-Holland}}
+
+@STRING{Ocean = {Oceanology}}
+
+@STRING{OD = {Ocean Dyn.}}
+
+@STRING{OM = {Ocean Modelling}}
+
+@STRING{OS = {Ocean Sc.}}
+
+@STRING{OUP = {Oxford University Press}}
+
+@STRING{PH = {Prentice-Hall}}
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+@STRING{PO = {Prog. Oceangr.}}
+
+@STRING{PP = {Pergamon Press}}
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+@STRING{PRSL = {Proceedings of the Royal Society of London}}
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+}
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+}
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+}
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+}
+
+@ARTICLE{Atmadipoera_al_DSR09,
+  author = {A. Atmadipoera and R. Molcard and G. Madec and S.Wijffels and J.
+	Sprintall and A. Koch-Larrouy and I. Jaya and A. Supangat},
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+	at the Outflow Straits},
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+  doi = {10.1016/j.dsr.2009.06.004},
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+}
+
+@ARTICLE{Aumont_al_GBC99,
+  author = {O. Aumont and P. Monfray and J. C. Orr and G. Madec and E. Maier-Reimer},
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+}
+
+@ARTICLE{Aumont_al_CD98,
+  author = {O. Aumont and J.C. Orr and D. Jamous and P. Monfray and O. Marti and G. Madec},
+  title = {A degradation approach to accelerate simulations to steady state
+	in a 3-D tracer transport model of the global ocean},
+  journal = CD,
+  year = {1998},
+  volume = {14},
+  pages = {101--116}
+}
+
+@ARTICLE{Axell_JGR02,
+  author = {L. B. Axell},
+  title = {Wind-driven internal waves and Langmuir circulations in a numerical ocean model of the southern Baltic Sea},
+  journal = JGR,
+  year = {2002},
+  volume = {107},
+  doi = {10.1029/2001JC000922},
+  url = {http://dx.doi.org/10.1029/2001JC000922}
+}
+
+@ARTICLE{Axell_Liungman_EFM01,
+  author = {L. B. Axell and O. Liungman},
+  title = {A one-equation turbulence model for geophysical applications: 
+  Comparison with data and the k-$\epsilon$ model},
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+  year = {2001},
+  volume = {1}, pages = {71--106},
+  doi = {10.1029/2001JC000922},
+  url = {http://dx.doi.org/10.1029/2001JC000922}
+}
+
+@ARTICLE{Ayina_al_JC06,
+  author = {L.-H. Ayina and A. Bentamy and A. Munes-Mestaz and G. Madec},
+  title = {The Impact of Satellite Winds and Latent Heat Fluxes in a Numerical
+	Simulation of the Tropical Pacific Ocean},
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+  pages = {5889--5902}
+}
+
+@ARTICLE{Barnier_al_OD06,
+  author = {B. Barnier and G. Madec and T. Penduff and J.-M. Molines and A.-M.
+	Treguier and J. Le Sommer and A. Beckmann and A. Biastoch and C. Boning 
+	and J. Dengg and C. Derval and E. Durand and S. Gulev and
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+}
+
+@INCOLLECTION{Barnier1996,
+  author = {B. Barnier and P. Marchesiello and A.P. de Miranda},
+  title = {Modeling the ocean circulation in the South Atlantic: A strategy for dealing with open boundaries},
+  booktitle = {The South Atlantic: Present and Past Circulation},
+  publisher = {Springer-Verlag, Berlin},
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+  pages = {289-304}
+}
+
+@ARTICLE{Barnier1998,
+  author = {B. Barnier and P. Marchesiello and A. P. de Miranda and J.M. Molines
+	and M. Coulibaly},
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+  volume = {45},
+  pages = {543--572}
+}
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+@ARTICLE{Barthelet_al_CRAS98,
+  author = {P. Barthelet and S. Bony and P. Braconnot and A. Braum and D. Cariolle
+	and E. Cohen-Solal and J.-L. Dufresne and P. Delecluse and M. D\'{e}qu\'{e}
+	and L. Fairhead and M.-A. Filiberti and M. Forichon and J.-Y. Grandpeix
+	and E. Guilyardi and M.-N. Houssais and M. Imbard and H. Le Treut
+	and C. Lévy and Z.X. Li and G. Madec and P. Marquet and O. Marti
+	and S. Planton and L. Terray and O. Thual and S. Valcke},
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+}
+
+@ARTICLE{Beckmann2003,
+  author = {A. Beckmann and H. Goosse},
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+  journal = OM,
+  year = {2003},
+  volume = {5},
+  pages = {157--170}
+}
+
+@ARTICLE{Beckmann1998,
+  author = {A. Beckmann},
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+	ocean circulation models.},
+  journal = {Ocean modelling and parameterization, E. P. Chassignet and J. Verron
+	(eds.), NATO Science Series, Kluwer Academic Publishers},
+  year = {1998}
+}
+
+@ARTICLE{Beckmann_Doscher1997,
+  author = {A. Beckmann and R. D\"{o}scher},
+  title = {A method for improved representation of dense water spreading over
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+  year = {1997},
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+  pages = {581--591}
+}
+
+@ARTICLE{Beckmann1993,
+  author = {A. Beckmann and D. B. Haidvogel},
+  title = {Numerical Simulation of Flow around a Tall Isolated Seamount. 
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+  journal = JPO,
+  year = {1993},
+  volume = {23},  number = {8},
+  pages = {1736--1753}
+}
+
+@ARTICLE{Bernie_al_CD07,
+  author = {D. Bernie and E. Guilyardi and G. Madec and J. M. Slingo and S. J. Woolnough},
+  title = {Impact of resolving the diurnal cycle in an ocean--atmosphere GCM. Part 1: a diurnally forced OGCM},
+  journal = CD,
+  year = {2007},
+  volume = {29},  number = {6},
+  pages = {575--590}
+}
+
+@ARTICLE{Bernie_al_CD08,
+  author = {D. Bernie and E. Guilyardi and G. Madec and J. M. Slingo and S. J. Woolnough},
+  title = {Impact of resolving the diurnal cycle in an ocean--atmosphere GCM. Part 2: A diurnally coupled CGCM},
+  journal = CD,
+  year = {2008},
+  volume = {31},  number = {7},
+  pages = {909--925},
+  doi = {10.1007/s00382-008-0429-z},
+  url = {http://dx.doi.org/10.1007/s00382-008-0429-z}
+}
+
+@ARTICLE{Bernie_al_JC05,
+  author = {D. J. Bernie and S. J. Woolnough and J. M. Slingo and E. Guilyardi},
+  title = {Modelling diurnal and intraseasonal variability of the ocean mixed
+	layer},
+  journal = JC,
+  year = {2005},
+  volume = {18},  number = {8},
+  pages = {1190--1200}
+}
+
+@ARTICLE{Bessiere_al_GRL08,
+  author = {L. Bessi\'{e}res and G. Madec and F. Lyard},
+  title = {Global Tidal Residual Mean Circulation: Does it Affect a Climate OGCM?},
+  journal = GRL,
+  year = {2008},
+  volume = {35},
+  pages = {L03609},
+  doi = {10.1029/2007GL032644},
+  url = {http://dx.doi.org/10.1029/2007GL032644}
+}
+
+@ARTICLE{Biastoch_al_JC08,
+  author = {A. Biastoch and C. W. Böning and J. Getzlaff and J.-M. Molines and G. Madec},
+  title = {Causes of interannual – decadal variability in the meridional overturning
+	circulation of the mid-latitude North Atlantic Ocean},
+  journal = JC,
+  year = {2008},
+  volume = {21},  number = {24},
+  pages = {6599-6615},
+  doi = {10.1175/2008JCLI2404.1},
+  url = {http://dx.doi.org/10.1175/2008JCLI2404.1}
+}
+
+@ARTICLE{Bignami_al_JGR95,
+  author = {F. Bignami and S. Marullo and R. Santoleri and M. E. Schiano},
+  title = {Longwave radiation budget in the Mediterranean Sea}, 
+  journal = JGR,
+  year = {1995},
+  volume = {100},  number = {C2},
+  pages = {2501--2514},
+  doi = {10.1029/94JC02496},
+}
+
+@ARTICLE{Blanke_al_JPO99,
+  author = {B. Blanke and M. Arhan and G. Madec and S. Roche},
+  title = {Warm Water Paths in the Equatorial Atlantic as Diagnosed with a General Circulation Model},
+  journal = JPO,
+  year = {1999},
+  volume = {29},  number = {11},
+  pages = {2753-2768}
+}
+
+@ARTICLE{Blanke1993,
+  author = {B. Blanke and P. Delecluse},
+  title = {Low frequency variability of the tropical Atlantic ocean simulated
+	by a general circulation model with mixed layer physics},
+  journal = JPO,
+  year = {1993},
+  volume = {23},
+  pages = {1363--1388}
+}
+
+@ARTICLE{blanke_al_JC97,
+  author = {B. Blanke and J. D. Neelin and D. Gutzler},
+  title = {Estimating the effect of stochastic wind forcing on ENSO irregularity},
+  journal = JC,
+  year = {1997},
+  volume = {10},
+  pages = {1473--1486}
+}
+
+@ARTICLE{Blanke_Raynaud_JPO97,
+  author = {B. Blanke and S. Raynaud},
+  title = {Kinematics of the Pacific Equatorial Undercurrent: An Eulerian and
+	Lagrangian Approach from GCM Results},
+  journal = JPO,
+  year = {1997},
+  volume = {27},  number = {6},
+  pages = {1038--1053}
+}
+
+@ARTICLE{Blanke_al_JPO01,
+  author = {B. Blanke and S. Speich and G. Madec and K. Döös},
+  title = {A global Diagnostic of interocean mass transfers},
+  journal = JPO,
+  year = {2001},
+  volume = {31},  number = {6},
+  pages = {1623--1632}
+}
+
+@ARTICLE{Blanke_al_GRL02,
+  author = {B. Blanke and S. Speich and G. Madec and R. Maug\'{e}},
+  title = {A global diagnostic of interior ocean ventilation},
+  journal = GRL,
+  year = {2002},
+  volume = {29},  number = {8},
+  pages = {1081--1084}
+}
+
+@ARTICLE{Blayo2005,
+  author = {E. Blayo and L. Debreu},
+  title = {Revisiting open boundary conditions from the point of view of characteristic
+	variables},
+  journal = OM,
+  year = {2005},
+  volume = {9},
+  pages = {231--252}
+}
+
+@ARTICLE{Bloom_al_MWR96,
+  author = {S. C. Bloom and L. L. Takacs and A. M. Da Silva and D. Ledvina},
+  title = {Data assimilation using incremental analysis updates},
+  journal = MWR,
+  year = {1996},
+  volume = {124},
+  pages = {1256--1271}
+}
+
+@ARTICLE{Bopp_al_GBC01,
+  author = {L. Bopp and P. Monfray and O. Aumont and J.-L. Dufresne and H. Le Treut 
+    and G. Madec and L. Terray and J.C. Orr},
+  title = {Potential impact of climate change on marine export production},
+  journal = GBC,
+  year = {2001},
+  volume = {15},  number = {1},
+  pages = {81--101}
+}
+
+@article{bouffard_Boegman_DAO2013,
+	author = {D. Bouffard and L. Boegman},
+	title = {A diapycnal diffusivity model for stratified environmental flows},
+	volume = {61-62},
+	issn = {03770265},
+	url = {http://dx.doi.org/10.1016/j.dynatmoce.2013.02.002},
+	doi = {10.1016/j.dynatmoce.2013.02.002},
+	journal = DAO,
+	year = {2013},
+	pages = {14--34},
+}
+
+@ARTICLE{Bougeault1989,
+  author = {P. Bougeault and P. Lacarrere},
+  title = {Parameterization of Orography-Induced Turbulence in a Mesobeta--Scale
+	Model},
+  journal = MWR,
+  year = {1989},
+  volume = {117},  number = {8},
+  pages = {1872--1890},
+}
+
+@ARTICLE{Bouillon_al_OM09,
+  author = {S. Bouillon and M.A. Morales Maqueda and V. Legat and T. Fichefet},
+  title = {An Elastic-Viscous-Plastic Sea Ice Model formulated on Arakawa B and C Grids},
+  journal = OM,
+  year = {2009},
+  volume = {27},
+  pages = {174--184},
+  doi = {10.1016/j.ocemod.2009.01.004},
+  url = {http://dx.doi.org/10.1016/j.ocemod.2009.01.004}
+}
+
+@ARTICLE{Boulanger_al_GRL01,
+  author = {J.-P. Boulanger and E. Durand and J.-P. Duvel and C. Menkes and P.
+	Delecluse and M. Imbard and M. Lengaigne and G. Madec and S. Masson},
+  title = {Role of non-linear oceanic processes in the response to westerly
+	wind events: new implications for the 1997 El Niño onset},
+  journal = GRL,
+  year = {2001},
+  volume = {28},  number = {8},
+  pages = {1603--1606}
+}
+
+@article{Brankart_OM2013,
+author = "J.-M. Brankart",
+title = "Impact of uncertainties in the horizontal density gradient upon low resolution global ocean modelling ",
+journal = OM,
+year = "2013",
+volume = "66", pages = "64--76",
+issn = "1463-5003",
+doi = "http://dx.doi.org/10.1016/j.ocemod.2013.02.004",
+url = "http://www.sciencedirect.com/science/article/pii/S1463500313000309",
+}
+
+@Article{Brankart_al_GMD2015,
+AUTHOR = {Brankart, J.-M. and Candille, G. and Garnier, F. and Calone, C. and Melet, A. and Bouttier, P.-A. and Brasseur, P. and Verron, J.},
+TITLE = {A generic approach to explicit simulation of uncertainty in the NEMO ocean model},
+JOURNAL = {Geoscientific Model Development},
+VOLUME = {8},
+YEAR = {2015},
+NUMBER = {5},
+PAGES = {1285--1297},
+URL = {http://www.geosci-model-dev.net/8/1285/2015/},
+DOI = {10.5194/gmd-8-1285-2015}
+}
+
+@ARTICLE{Brodeau_al_OM09,
+  author = {L. Brodeau and B. Barnier and A.-M. Tr\'{e}guier and T. Penduff and S. Gulev},
+  title = {An ERA40-based atmospheric forcing for global ocean circulation models},
+  journal = OM,
+  year = {2009},
+  volume = {31},  number = {3-4},
+  pages = {88--104}
+}
+
+
+@ARTICLE{de_Boyer_Montegut_al_JGR04,
+  author = {C. de Boyer Mont\'{e}gut and G. Madec and A.S. Fischer and A. Lazar and D. Iudicone},
+  title = {Mixed layer depth over the global ocean: An examination of profile
+	data and a profile-based climatology},
+  journal = JGR,
+  year = {2004},
+  volume = {109},
+  pages = {C12003},
+  doi = {10.1029/2004JC002378},
+  url = {http://dx.doi.org/10.1029/2004JC002378}
+}
+
+@ARTICLE{de_Boyer_Montegut_al_JC07,
+  author = {C. de Boyer Mont\'{e}gut and J. Vialard and F. Durand and G. Madec},
+  title = {Simulated seasonal and interannual variability of mixed layer heat
+	budget in the northern Indian Ocean},
+  journal = JC,
+  year = {2007},
+  volume = {20},  number = {13},
+  pages = {3249--3268}
+}
+
+@ARTICLE{Brown_Campana_MWR78,
+  author = {J. A. Brown and K. A. Campana},
+  title = {An Economical Time-Differencing System for Numerical Weather Prediction},
+  journal = MWR,
+  year = {1978},
+  volume = {106},  number = {8},
+  pages = {1125--1136},
+}
+
+@ARTICLE{Bryan1997,
+  author = {K. Bryan},
+  title = {A Numerical Method for the Study of the Circulation of the World Ocean},
+  journal = JCP,
+  year = {1997},
+  volume = {135},  number = {2}
+}
+
+@ARTICLE{Bryan1984,
+  author = {K. Bryan},
+  title = {Accelerating the convergence to equilibrium of ocean-climate models},
+  journal = JPO,
+  year = {1984},
+  volume = {14},
+  pages = {666--673}
+}
+
+@ARTICLE{Bryden1973,
+  author = {H. L. Bryden},
+  title = {New polynomials for thermal expansion, adiabatic temperature gradient
+    and potential temperature of sea water},
+  journal = DSR,
+  year = {1973},
+  volume = {20},
+  pages = {401--408}
+}
+
+@ARTICLE{Burchard_OM02,
+  author = {Hans Burchard},
+  title = {Energy-conserving discretisation of turbulent shear and buoyancy
+	production},
+  journal = OM,
+  year = {2002},
+  volume = {4},  number = {3-4},
+  pages = {347--361},
+  doi = {10.1016/S1463-5003(02)00009-4},
+  url = {http://dx.doi.org/10.1016/S1463-5003(02)00009-4}
+}
+
+@ARTICLE{Campin2004,
+  author = {J.-M. Campin and A. Adcroft and C. Hill and J. Marshall},
+  title = {Conservation of properties in a free-surface model},
+  journal = OM,
+  year = {2004},
+  volume = {6},  number = {3-4},
+  pages = {221--244}
+}
+
+@ARTICLE{Campin_al_OM08,
+  author = {J.-M. Campin and J. Marshall and D. Ferreira},
+  title = {Sea ice-ocean coupling using a rescaled vertical coordinate z*},
+  journal = OM,
+  year = {2008},
+  volume = {24},  number = {1-2},
+  pages = {1--14},
+  doi = {10.1016/j.ocemod.2008.05.005},
+  url = {http://dx.doi.org/10.1016/j.ocemod.2008.05.005}
+}
+
+@ARTICLE{Campin_Goosse_Tel99,
+  author = {J.-M. Campin and H. Goosse},
+  title = {Parameterization of density-driven downsloping flow for a coarse-resolution ocean model in z-coordinate},
+  journal = {Tellus},
+  year = {1999},
+  volume = {51},
+  pages = {412--430}
+}
+
+@ARTICLE{Carrere_Lyard_GRL03,
+  author = {L. Carr\`{e}re and F. Lyard},
+  title = {Modelling the barotropic response of the global ocean to atmospheric
+	wind and pressure forcing - comparisons with observations},
+  journal = GRL,
+  year = {2003},
+  volume = {30},  number = {6},
+  doi = {10.1029/2002GL016473},
+  url = {http://dx.doi.org/10.1029/2002GL016473}
+}
+
+@ARTICLE{Castellari_al_JMS1998,
+  author = {S> Castellari and  N. Pinardi and K. Leaman },
+  title = {A model study of air-sea interactions in the Mediterranean Sea.},
+  journal = JMS,
+  year = {1998},
+  volume = {18},
+  pages = {89--114}
+}
+
+@TECHREPORT{Chanut2005,
+ author = {J. Chanut},
+ title = {Nesting code for NEMO},
+ year = {2005},
+ institution = {European Union: Marine Environment and Security for the European Area (MERSEA) Integrated Project},
+note = {MERSEA-WP09-MERCA-TASK-9.1.1}
+} 
+
+@ARTICLE{Chassignet_al_JPO03,
+  author = {Eric P. Chassignet and Linda T. Smith and George R. Halliwell},
+  title = {North Atlantic Simulations with the Hybrid Coordinate Ocean Model
+	(HYCOM): Impact of the Vertical Coordinate Choice, Reference Pressure, and Thermobaricity},
+  journal = JPO,
+  year = {2003},
+  volume = {33},
+  pages = {2504-2526}
+}
+
+@ARTICLE{Covey_al_CD00,
+  author = {C. Covey and A. Abe-Ouchi and G.J. Boer and B.A. Boville and U. Cubasch
+	and L. Fairhead and G.M. Flato and H. Gordon and E. Guilyardi and X. Jiang 
+	and T.C. Johns and H. Le Treut and G. Madec and G.A. Meehl and R. Miller 
+	and A. Noda and S. B. Power and E. Roeckner and G. Russell and E.K. Schneider 
+	and R.J. Stouffer and L. Terray and J.-S. von Storch},
+  title = {The seasonal cycle in coupled ocean-atmosphere general circulation models},
+  journal = CD,
+  year = {2000},
+  volume = {16},
+  pages = {775--787}
+}
+
+@ARTICLE{Canuto_2001,
+  author = {V. M. Canuto and A. Howard and Y. Cheng and M. S. Dubovikov},
+  title = {Ocean turbulence. PartI: One-point closure model-momentum and heat vertical diffusivities},
+  journal = JPO,
+  year = {2001},
+  volume = {24},  number = {12},
+  pages = {2546--2559}
+}
+
+@ARTICLE{Cox1987,
+  author = {M. Cox},
+  title = {Isopycnal diffusion in a z-coordinate ocean model},
+  journal = OM,
+  year = {1987},
+  volume = {74},
+  pages = {1--9}
+}
+
+@ARTICLE{Craig_Banner_JPO94,
+  author = {P. D. Craig and M. L. Banner},
+  title = {Modeling wave-enhanced turbulence in the ocean surface layer},
+  journal = JPO,
+  year = {1994},
+  volume = {24},  number = {12},
+  pages = {2546--2559}
+}
+
+@ARTICLE{Craik_Leibovich_JFM76,
+  author = {A. D. D. Craik and S. Leibovich},
+  title = {A rational model for Langmuir circulations},
+  journal = JFM,
+  year = {1976},
+  volume = {73}, 
+  pages = {401--426}
+}
+
+@ARTICLE{Cravatte_al_OM07,
+  author = {Cravatte, S. and G. Madec and T. Izumo and C. Menkes and A. Bozec},
+  title = {Progress in the 3-D circulation of the eastern equatorial Pacific
+	in a climate ocean model},
+  journal = OM,
+  year = {2007},
+  volume = {17},  number = {1},
+  pages = {28--48}
+}
+
+@BOOK{Daley_Barker_Bk01,
+  author = {R. Daley and E. Barker},
+  title = {NAVDAS Source Book 2001},
+  publisher = {NRL/PU/7530-01-441, Available from the Naval Research Laboratory, Monterey, CA., 93943-5502},
+  year = {2001},
+  pages = {163pp}
+}
+
+@ARTICLE{D'Alessio_al_JPO98,
+  author = {S. J. D. D'Alessio and K. Abdella and N. A. McFarlane},
+  title = {A new second-order turbulence closure scheme for modeling the oceanic mixed layer},
+  journal = JPO,
+  year = {1998},
+  volume = {28},
+  pages = {1624--1641}
+}
+
+
+@ARTICLE{Danabasoglu_al_2008,
+	author = {G. Danabasoglu and R. Ferrari and J. C. McWilliams},
+	title = {Sensitivity of an ocean general circulation model to a parameterization of near-surface eddy fluxes},
+	volume = {21},
+	year = {2008},
+	doi = {10.1175/2007JCLI1508.1},
+	journal = {J. Climate},
+	pages = {1192--1208},
+        url = {http://dx.doi.org/10.1175/2007JCLI1508.1}
+}
+@ARTICLE{Dandonneau_al_S04,
+  author = {Y. Dandonneau and C. Menkes and T. Gorgues and G. Madec},
+  title = {Reply to Peter Killworth, 2004 : '' Comment on the Oceanic Rossby
+	Waves acting as a “Hay Rake” for ecosystem by-products ''},
+  journal = {Science},
+  year = {2004},
+  volume = {304},
+  pages = {390}
+}
+
+@ARTICLE{Davies_QJRMS76,
+ author = {H.C. Davies},
+ title = {A lateral boundary formulation for multi-level prediction models},
+ year = {1976},
+ journal = QJRMS,
+ volume = {102},
+ pages = {405--418}
+}
+
+@ARTICLE{Debreu_al_CG2008,
+  author = {L. Debreu and C. Vouland and E. Blayo},
+  title = {AGRIF: Adaptive Grid Refinement In Fortran},
+  journal = {Computers and Geosciences},
+  year = {2008},
+  volume = {34},
+  pages = {8--13}
+}
+
+@article{de_lavergne_JPO2016_efficiency,
+	title = {The impact of a variable mixing efficiency on the abyssal overturning},
+	issn = {0022-3670},
+	url = {http://dx.doi.org//10.1175/JPO-D-14-0259.1},
+	doi = {10.1175/JPO-D-14-0259.1},
+	abstract = {In studies of ocean mixing, it is generally assumed that small-scale turbulent overturns lose 15-20 \% of their energy in eroding the background stratification. Accumulating evidence that this energy fraction, or mixing efficiency Rf, significantly varies depending on flow properties challenges this assumption, however. Here, we examine the implications of a varying mixing efficiency for ocean energetics and deep water mass transformation. Combining current parameterizations of internal wave-driven mixing with a recent model expressing Rf as a function of a turbulence intensity parameter Reb = εν/νN2, we show that accounting for reduced mixing efficiencies in regions of weak stratification or energetic turbulence (high Reb) strongly limits the ability of breaking internal waves to supply oceanic potential energy and drive abyssal upwelling. Moving from a fixed Rf = 1/6 to a variable efficiency Rf(Reb) causes Antarctic Bottom Water upwelling induced by locally-dissipating internal tides and lee waves to fall from 9 to 4 Sv, and the corresponding potential energy source to plunge from 97 to 44 GW. When adding the contribution of remotely-dissipating internal tides under idealized distributions of energy dissipation, the total rate of Antarctic Bottom Water upwelling is reduced by about a factor of 2, reaching 5-15 Sv compared to 10-33 Sv for a fixed efficiency. Our results suggest that distributed mixing, overflow-related boundary processes and geothermal heating are more effective in consuming abyssal waters than topographically-enhanced mixing by breaking internal waves. Our calculations also point to the importance of accurately constraining Rf(Reb) and including the effect in ocean models.},
+	journal = {Journal of Physical Oceanography},
+	author = {C. de Lavergne and G. Madec and J. Le Sommer and A. J. G. Nurser and A. C. Naveira Garabato },
+	year = {2016},
+	volume = {46},  pages = {663-–681}
+}
+
+@ARTICLE{Delecluse_Madec_Bk00,
+  author = {P. Delecluse and G. Madec},
+  title = {Ocean modelling and the role of the ocean in the climate system},
+  journal = {In \textit{Modeling the Earth's Climate and its Variability}, Les
+	Houches, Session, LXVII 1997,
+	Eds. W. R. Holland, S. Joussaume and F. David, Elsevier Science},
+  year = {2000},
+  pages = {237--313}
+}
+
+@PHDTHESIS{Demange_PhD2014,
+  author = {J. Demange},
+  title = {Sch\'{e}́mas num\'{e}́riques d'advection et de propagation d’ondes de gravit\'{e}́ 
+           dans les mod\`{e}les de circulation oc\'{e}́anique.},
+  school = {Doctorat es Applied Mathematiques, Grenoble University, France},
+  year = {2014},
+  pages = {138pp}
+}
+
+@ARTICLE{Dobricic_al_OS07,
+  author = {S. Dobricic and N. Pinardi and M. Adani and M. Tonani and 
+            C. Fratianni and A. Bonazzi and V. Fernandez},
+  title = {Daily oceanographic analysis by the Mediterranean basin scale 
+           assimilation system},
+  journal = OS,
+  year = {2007},
+  volume = {3},
+  pages = {149-157}
+}
+
+@ARTICLE{Doney_al_GBC04,
+  author = {S.C. Doney and K. Lindsay and K. Caldeira and J.−M. Campin and H.
+	Drange and J.−C. Dutay and M. Follows and Y. Gao and A. Gnanadesikan
+	and N. Gruber and A. Ishida and F. Joos and G. Madec and E. Maier−Reimer
+	and J.C. Marshall and R.J. Matear and P. Monfray and A. Mouchet and
+	R. Najjar and J.C. Orr and G.−K. Plattner and J. Sarmiento and R.
+	Schlitzer and R. Slater and I.J. Totterdell and M.−F. Weirig and
+	Y. Yamanaka and A. Yoo},
+  title = {Evaluating global ocean carbon models: the importance of realistic
+	physics},
+  journal = GBC,
+  year = {2004},
+  volume = {18},
+  pages = {GB3017},
+  doi = {10.1029/2003GB002150},
+  url = {http://dx.doi.org/10.1029/2003GB002150}
+}
+
+@ARTICLE{Dorscher_Beckmann_JAOT00,
+  author = {R. D\"{o}scher and A. Beckmann},
+  title = {Effects of a Bottom Boundary Layer Parameterization in a Coarse-Resolution
+	Model of the North Atlantic Ocean},
+  journal = JAOT,
+  year = {2000},
+  volume = {17},
+  pages = {698--707}
+}
+
+@ARTICLE{Drijfhout_JPO94,
+  author = {S. S. Drijfhout},
+  title = {Heat transport by Mesoscale Eddies in an Ocean Circulation Model},
+  journal = JPO,
+  year = {1994},
+  volume = {24},
+  pages = {353--369}
+}
+
+@ARTICLE{Dukowicz1994,
+  author = {J. K. Dukowicz and R. D. Smith},
+  title = {Implicit free-surface method for the Bryan-Cox-Semtner ocean model},
+  journal = JGR,
+  year = {1994},
+  volume = {99},
+  pages = {7991--8014}
+}
+
+@ARTICLE{Durand_al_JC07,
+  author = {F. Durand and D. Shankar and C. de Boyer Mont\'{e}gut and S.S.C.
+	Shenoi and B. Blanke and G. Madec},
+  title = {Modeling the barrier-layer formation in the South-Eastern Arabian
+	Sea},
+  journal = JC,
+  year = {2007},
+  volume = {20},  number = {10},
+  pages = {2109--2120}
+}
+
+@ARTICLE{Durand_al_GRL04,
+  author = {F. Durand and S. R. Shetye and J. Vialard and D. Shankar and S.S.C.
+	Shenoi and C. Eth\'{e} and G. Madec},
+  title = {Impact of temperature inversions on SST evolution in the South−Eastern
+	Arabian Sea during the pre−summer monsoon season},
+  journal = GRL,
+  year = {2004},
+  volume = {31},
+  pages = {L01305},
+  doi = {10.1029/2003GL018906},
+  url = {http://dx.doi.org/10.1029/2003GL018906}
+}
+
+@INCOLLECTION{Durran2001,
+  author = {D.R. Durran },
+  title = {Open boundary conditions: fact and fiction},
+  booktitle = {Advances in Mathematical Modelling of Atmosphere and Ocean Dynamics},
+  publisher = {Kluwer Academic Publishers},
+  year = {2001},
+  editor = {P.F. Hodnett}
+}
+
+@ARTICLE{Dutay_al_OM02,
+  author = {J.-C. Dutay and J.L. Bullister and S.C. Doney and J.C. Orr and R.
+	Najjar and K. Caldeira and J.-M. Campin and H. Drange and M. Follows
+	and Y. Gao and N. Gruber and M. W. Hecht and A. Ishida and F. Joos
+	and K. Lindsay and G. Madec and E. Maier-Reimer and J.C. Mashall
+	and R. J. Matear and P. Monfray and G.-K. Plattner and J. Sarmiento
+	and R. Schlitzer and R. Slater and I.J. Totterdell and M.-F. Weirig
+	and Y. Yamanaka and A. Tool},
+  title = {Evaluation of ocean model ventilation with CFC-11: comparison of
+	13 global ocean models},
+  journal = OM,
+  year = {2002},
+  volume = {4},
+  pages = {89--120}
+}
+
+@ARTICLE{Dutay_al_EFM09,
+  author = {J.-C. Dutay and J. Emile-Geay and D. Iudicone and P. Jean-Baptiste
+	and G. Madec and C. Carouge},
+  title = {Helium Isotopic Constraints on Simulated Ocean Circulations - Implications
+	for abyssal theories},
+  journal = EFM,
+  year = {2009},
+  volume = {10},  number = {1-2},
+  pages = {257--273},
+  url = {http://dx.doi.org/10.1007/s10652-009-9159-y}
+}
+
+@ARTICLE{Dutay.J.C2004,
+  author = {J. -C. Dutay and P. J. -Baptiste and J. -M. Campin and A. Ishida
+	and E. M. -Reimer and R. J. Matear and A. Mouchet and I. J. Totterdell
+	and Y. Yamanaka and K. Rodgers and G. Madec and J.C. Orr},
+  title = {Evaluation of OCMIP-2 ocean models deep circulation with mantle helium-3},
+  journal = JMS,
+  year = {2004},
+  pages = {1--22}
+}
+
+@ARTICLE{D'Ortenzio_al_GRL05,
+  author = {F. D\'Ortenzio and D. Iudicone and C. de Boyer Mont\'{e}gut and P.
+	Testor and D. Antoine and S. Marullo and R. Santoleri and G. Madec},
+  title = {Seasonal variability of the mixed layer depth in the Mediterranean
+	Sea : a new climatology based on analysis of individual profiles},
+  journal = GRL,
+  year = {2005},
+  volume = {32},
+  pages = {L12605},
+  doi = {10.1029/2005GL022463},
+  url = {http://dx.doi.org/10.1029/2005GL022463}
+}
+
+@ARTICLE{Egbert_Ray_JGR01,
+  author = {G.B. Egbert and R.D. Ray},
+  title = {Estimates of M2 tidal energy dissipation from TOPEX/POSEIDON altimeter
+	data},
+  journal = JGR,
+  year = {2001},
+  volume = {106},
+  pages = {22475--22502}
+}
+
+@ARTICLE{Egbert_Ray_Nat00,
+  author = {G.B. Egbert and R.D Ray},
+  title = {Significant dissipation of tidal energy in the deep ocean inferred
+	from satellite altimeter data},
+  journal = {Nature},
+  year = {2000},
+  volume = {405},
+  pages = {775--778}
+}
+
+@ARTICLE{Eiseman1980,
+  author = {P. R. Eiseman and A. P. Stone},
+  title = {Conservation lows of fluid dynamics -- A survey},
+  journal = {SIAM Review},
+  year = {1980},
+  volume = {22},
+  pages = {12--27}
+}
+
+@ARTICLE{Emile-Geay_Madec_OS09,
+  author = {J. Emile-Geay and G. Madec},
+  title = {Geothermal heating, diapycnal mixing and the abyssal circulation},
+  journal = OS,
+  year = {2009},
+  volume = {5},
+  pages = {281--325}
+}
+
+@ARTICLE{Engerdahl_Tel95,
+ author = {H. Engerdahl},
+ year = {1995},
+ title = {Use of the flow relaxation scheme in a three-dimensional baroclinic ocean model with realistic topography},
+ journal = {Tellus},
+ volume = {47A},
+ pages = {365--382}
+}
+
+@ARTICLE{EUROMODEL_OA95,
+  author = {EUROMODEL Group (P.M. Lehucher, L. Beautier, M. Chartier, F. Martel,
+	L. Mortier, P. Brehmer, C. Millot, C. Alberola, M. Benzhora, I. Taupier-Letage,
+	G. Chabert d'Hieres, H. Didelle, P. Gleizon, D. Obaton, M. Cr\'{e}pon,
+	C. Herbaut, G. Madec, S. Speich, J. Nihoul, J. M. Beckers, P. Brasseur,
+	E. Deleersnijder, S. Djenidi, J. Font, A. Castellon, E. Garcia-Ladona,
+	M. J. Lopez-Garcia, M. Manriquez, M. Maso, J. Salat, J. Tintore,
+	S. Alonso, D. Gomis, A. Viudez, M. Astraldi, D. Bacciola, M. Borghini,
+	F. Dell'amico, C. Galli, E. Lazzoni, G. P. Gasparini, S. Sparnocchia,
+	and A. Harzallah, 1995 : Progress from 1989 to 1992 in understanding
+	the circulation of the Western Mediterranean Sea. Oceanologica Acta,
+	18, 2, 255-271.},
+  title = {EUROMODEL Group (P.M. Lehucher, L. Beautier, M. Chartier, F. Martel,
+	L. Mortier, P. Brehmer, C. Millot, C. Alberola, M. Benzhora, I. Taupier-Letage,
+	G. Chabert d'Hieres, H. Didelle, P. Gleizon, D. Obaton, M. Cr\'{e}pon,
+	C. Herbaut, G. Madec, S. Speich, J. Nihoul, J. M. Beckers, P. Brasseur,
+	E. Deleersnijder, S. Djenidi, J. Font, A. Castellon, E. Garcia-Ladona,
+	M. J. Lopez-Garcia, M. Manriquez, M. Maso, J. Salat, J. Tintore,
+	S. Alonso, D. Gomis, A. Viudez, M. Astraldi, D. Bacciola, M. Borghini,
+	F. Dell'amico, C. Galli, E. Lazzoni, G. P. Gasparini, S. Sparnocchia,
+	and A. Harzallah, 1995 : Progress from 1989 to 1992 in understanding
+	the circulation of the Western Mediterranean Sea.},
+  journal = {Oceanologica Acta},
+  year = {1995},
+  volume = {18},  number = {2},
+  pages = {255--271}
+}
+
+@PHDTHESIS{Farge1987,
+  author = {M. Farge},
+  title = {Dynamique non lineaire des ondes et des tourbillons dans les equations de Saint Venant},
+  school = {Doctorat es Mathematiques, Paris VI University, France},
+  year = {1987},
+  pages = {401pp}
+}
+
+@ARTICLE{Farrow1995,
+  author = {D. E. Farrow and D. P. Stevens},
+  title = {A new tracer advection scheme for Bryan--Cox type ocean general circulation
+	models},
+  journal = JPO,
+  year = {1995},
+  volume = {25},
+  pages = {1731--1741.}
+}
+
+@ARTICLE{Flather1976,
+ author = {R.A. Flather},
+ year = {1976},
+ title = {A tidal model of the north-west European continental shelf},
+ journal = {Memoires de la Societ\'{e} Royale des Sciences de Li\`{e}ge},
+ volume = {6},
+ pages = {141--164}
+}
+
+@ARTICLE{Flather_JPO94,
+ author = {R.A. Flather},
+ year = {1994},
+ title = {A storm surge prediction model for the northern Bay of Bengal with application to the cyclone disaster in April 1991},
+ journal = JPO,
+ volume = {24},
+ pages = {172--190}
+}
+
+@ARTICLE{Fujio1991,
+  author = {S. Fujio and N. Imasato},
+  title = {Diagnostic calculation for circulation and water mass movement in
+	the deep Pacific},
+  journal = JGR,
+  year = {1991},
+  volume = {96},
+  pages = {759--774}
+}
+
+@ARTICLE{Galperin_al_JAS88,
+  author = {B. Galperin and L. H. Kantha and S. Hassid and A. Rosati},
+  title = {A quasi-equilibrium turbulent energy model for geophysical flows},
+  journal = JAS,
+  year = {1988},
+  volume = {45},
+  pages = {55--62}
+}
+
+@ARTICLE{Gargett1984,
+  author = {A. E. Gargett},
+  title = {Vertical eddy diffusivity in the ocean interior},
+  journal = JMR,
+  year = {1984},
+  volume = {42}
+}
+
+@ARTICLE{Gaspar1990,
+  author = {P. Gaspar and Y. Gr{\'e}goris and J.-M. Lefevre},
+  title = {A simple eddy kinetic energy model for simulations of the oceanic vertical mixing\: 
+    Tests at Station Papa and long-term upper ocean study site},
+  journal = JGR,
+  year = {1990},
+  volume = {95},  number = {C9}
+}
+
+@ARTICLE{Gent1990,
+  author = {P. R. Gent and J. C. Mcwilliams},
+  title = {Isopycnal Mixing in Ocean Circulation Models},
+  journal = JPO,
+  year = {1990},
+  volume = {20},  number = {1},
+  pages = {150--155},
+}
+
+@Article{Gentemann_al_JGR09,
+  author = 	 {C. L. Gentemann  and P. J. Minnett and B. Ward},
+  title =        {Profiles of Ocean Surface heating ({POSH}): A new model 
+                  of upper ocean diurnal warming},
+  journal = 	 JGR,
+  year = 	 {2009},
+  Volume = 	 {114},
+  Pages = 	 {C07017},
+  doi = 	 {10.1029/2008JC004825},
+  OPTannote = 	 {}
+}
+
+@ARTICLE{Gerdes1993a,
+  author = {R. Gerdes},
+  title = {A primitive equation ocean circulation model using a general vertical
+	coordinate transformation 1. Description and testing of the model},
+  journal = JGR,
+  year = {1993},
+  volume = {98}
+}
+
+@ARTICLE{Gerdes1993b,
+  author = {R. Gerdes},
+  title = {A primitive equation ocean circulation model using a general vertical
+	coordinate transformation 2. Application to an overflow problem},
+  journal = JGR,
+  year = {1993},
+  volume = {98},
+  pages = {14703--14726}
+}
+@ARTICLE{Gerdes1991,
+	Author = {Gerdes, R{\"u}diger and K{\"o}berle, Cornelia and Willebrand, J{\"u}rgen},
+	Doi = {10.1007/BF00210006},
+	Journal = {Clim. Dynamics},
+	Number = {4},
+	Pages = {211--226},
+	Title = {The influence of numerical advection schemes on the results of ocean general circulation models},
+	Url = {http://dx.doi.org/10.1007/BF00210006},
+	Volume = {5},
+	Year = {1991},
+}
+@TECHREPORT{Gibson_TR86,
+  author = {J. K. Gibson},
+  title = {Standard software development and maintenance},
+  institution = {Operational Dep., ECMWF, Reading, UK.},
+  year = {1986}
+}
+
+@BOOK{Gill1982,
+  title = {Atmosphere-Ocean Dynamics},
+  publisher = {International Geophysics Series, Academic Press, New-York},
+  year = {1982},
+  author = {A. E. Gill}
+}
+
+@article{goff_JGR2010,
+	author = {J. A. Goff},
+	title = {Global prediction of abyssal hill root-mean-square heights from small-scale altimetric gravity variability},
+	issn = {2156-2202},
+	url = {http://dx.doi.org/10.1029/2010JB007867},
+	doi = {10.1029/2010JB007867},
+	abstract = {Abyssal hills, which are pervasive landforms on the seafloor of the Earth's oceans, represent a potential tectonic record of the history of mid-ocean ridge spreading. However, the most detailed global maps of the seafloor, derived from the satellite altimetry-based gravity field, cannot be used to deterministically characterize such small-scale ({\textless}10 km) morphology. Nevertheless, the small-scale variability of the gravity field can be related to the statistical properties of abyssal hill morphology using the upward continuation formulation. In this paper, I construct a global prediction of abyssal hill root-mean-square (rms) heights from the small-scale variability of the altimetric gravity field. The abyssal hill-related component of the gravity field is derived by first masking distinct features, such as seamounts, mid-ocean ridges, and continental margins, and then applying a newly designed adaptive directional filter algorithm to remove fracture zone/discontinuity fabric. A noise field is derived empirically by correlating the rms variability of the small-scale gravity field to the altimetric noise field in regions of very low relief, and the noise variance is subtracted from the small-scale gravity variance. Suites of synthetically derived, abyssal hill formed gravity fields are generated as a function of water depth, basement rms heights, and sediment thickness and used to predict abyssal hill seafloor rms heights from corrected small-scale gravity rms height. The resulting global prediction of abyssal hill rms heights is validated qualitatively by comparing against expected variations in abyssal hill morphology and quantitatively by comparing against actual measurements of rms heights. Although there is scatter, the prediction appears unbiased.},
+	volume = {115},
+	number = {B12},
+	journal = {Journal of Geophysical Research: Solid Earth},
+	year = {2010},
+	pages = {B12104},
+}
+
+@ARTICLE{Goosse_al_JGR99,
+  author = {H. Goosse and E. Deleersnijder and T. Fichefet and M. England},
+  title = {Sensitivity of a global coupled ocean-sea ice model to the parameterization of vertical mixing},
+  journal = JGR,
+  year = {1999},
+  volume = {104},
+  pages = {13,681--13,695}
+}
+
+@ARTICLE{Gorgues_al_GRL07,
+  author = {T. Gorgues and C. Menkes and O. Aumont and K. Rodgers and G. Madec and Y. Dandonneau},
+  title = {Indonesian Throughflow control of the eastern equatorial Pacific biogeochemistry},
+  journal = GRL,
+  year = {2007},
+  volume = {34},
+  pages = {L05609},
+  doi = {10.1029/2006GL028210},
+  url = {http://dx.doi.org/10.1029/2006GL028210}
+}
+
+@ARTICLE{Graham_McDougall_JPO13,
+  author = {F.S. Graham and T.J. McDougall},
+  title = {Quantifying the nonconservative production of conservative temperature, potential temperature, and entropy},
+  journal = JPO,
+  year = {2013},
+  volume = {43},
+  pages = {838--862},
+  url ={http://dx.doi.org/10.1175/JPO-D-11-0188.1}
+}
+
+@ARTICLE{Greatbatch_JGR94,
+  author = {R. J. Greatbatch},
+  title = {A note on the representation of steric sea level in models that conserve
+	volume rather than mass},
+  journal = JGR,
+  year = {1994},
+  volume = {99},  number = {C6},
+  pages = {12,767--12,771}
+}
+
+@BOOK{Griffies_Bk04,
+  title = {Fundamentals of ocean climate models},
+  publisher = {Princeton University Press, 434pp},
+  year = {2004},
+  author = {S.M. Griffies}
+}
+
+@ARTICLE{Griffies_JPO98,
+  author = {S.M. Griffies},
+  title = {The Gent-McWilliams skew-flux},
+  journal = JPO,
+  year = {1998},
+  volume = {28},
+  pages = {831--841}
+}
+
+@ARTICLE{Griffies_al_OM09,
+  author = {S.M. Griffies and A. Biastoch and C. Boning and F. Bryan and G. Danabasoglu
+	and E. P. Chassignet and M. H. England and R. Gerdes and H. Haak
+	and R. W. Hallberg and W. Hazeleger and J. Jungclaus and W. G. Large
+	and G. Madec and A. Pirani and B. L. Samuels and M. Scheinert and
+	A. Sen Gupta and C. A. Severijns and H. L. Simmons and A.-M. Treguier
+	and M. Winton and S. Yeager and J. Yin},
+  title = {Coordinated Ocean-ice Reference Experiments (COREs)},
+  journal = OM,
+  year = {2009},
+  volume = {26},  number = {1-2},
+  pages = {1--46},
+  doi = {10.1016/j.ocemod.2008.08.007},
+  url = {http://dx.doi.org/10.1016/j.ocemod.2008.08.007}
+}
+
+@ARTICLE{Griffies_al_OS05,
+  author = {S.M. Griffies and A. Gnanadesikan and K.W. Dixon and J.P. Dunne and
+	R. Gerdes and M.J. Harrison and A. Rosati and J.L. Russell and B.L.
+	Samuels and M.J. Spelman and M. Winton and R. Zhang},
+  title = {Formulation of an ocean model for global climate simulations},
+  journal = OS,
+  year = {2005},
+  volume = {1},
+  pages = {45--79}
+  }
+
+@ARTICLE{Griffies_al_JPO98,
+  author = {S.M. Griffies and A. Gnanadesikan and R.C. Pacanowski and V.D. Larichev
+	and J.K. Dukowicz and R.D. Smith},
+  title = {Isoneutral Diffusion in a z-Coordinate Ocean Model},
+  journal = JPO,
+  year = {1998},
+  volume = {28},  number = {5},
+  pages = {805--830},
+}
+
+@ARTICLE{Griffies_al_MWR01,
+  author = {S.M. Griffies and R.C. Pacanowski and M. Schmidt and V. Balaji},
+  title = {Tracer Conservation with an Explicit Free Surface Method for z-Coordinate
+	Ocean Models},
+  journal = MWR,
+  year = {2001},
+  volume = {129},  number = {5},
+  pages = {1081--1098},
+}
+
+@ARTICLE{Griffies_Hallberg_MWR00,
+  author = {S.M. Griffies and R.H. Hallberg},
+  title = {Biharmonic friction with a Smagorinsky-like viscosity for use in large-scale eddy-permitting ocean models},
+  journal = MWR,
+  year = {2000},
+  volume = {128},  
+  pages = {2935–-2946},
+ url = {http://dx.doi.org/10.1175/1520-0493(2000)128}
+}
+
+@ARTICLE{Guilyardi_al_JC04,
+  author = {E. Guilyardi and S. Gualdi and J. M. Slingo and A. Navarra and P. Delecluse 
+    and J. Cole and G. Madec and M. Roberts and M. Latif and L. Terray},
+  title = {Representing El Ni\~{n}o in coupled ocean-atmosphere GCMs: the dominant role of the atmospheric component},
+  journal = JC,
+  year = {2004},
+  volume = {17},
+  pages = {4623--4629}
+}
+
+@ARTICLE{Guilyardi_Madec_CD98,
+  author = {E. Guilyardi and G. Madec},
+  title = {Performance of the OPA-ARPEGE-T21 global ocean-atmosphere coupled model},
+  journal = CD,
+  year = {1997},
+  volume = {13},
+  pages = {149--165}
+}
+
+@ARTICLE{Guilyardi_al_CD01,
+  author = {E. Guilyardi and G. Madec and L. Terray},
+  title = {The role of lateral ocean physics in the upper ocean thermal balance of a coupled ocean-atmosphere GCM},
+  journal = CD,
+  year = {2001},
+  volume = {17},
+  pages = {589--599},
+  number = {8}
+}
+
+@ARTICLE{Guilyardi_al_CRAS95,
+  author = {E. Guilyardi and G. Madec and L. Terray and M. D\'{e}qu\'{e} and
+	M. Pontaud and M. Imbard and D. Stephenson and M.-A. Filiberti and
+	D. Cariolle and P. Delecluse and O. Thual},
+  title = {Simulation couplée océan-atmosphère de la variabilité du climat},
+  journal = {C. R. Acad. Sci Paris},
+  year = {1995},
+  volume = {320},  number = {s\'{e}rie IIa},
+  pages = {683--690}
+}
+
+@ARTICLE{Guyon_al_EP99,
+  author = {M. Guyon and G. Madec and F.-X. Roux and M. Imbard},
+  title = {A Parallel ocean model for high resolution studies},
+  journal = {Lecture Notes in Computer Science},
+  year = {1999},
+  volume = {Euro-Par'99},
+  pages = {603--607}
+}
+
+@ARTICLE{Guyon_al_CalPar99,
+  author = {M. Guyon and G. Madec and F.-X. Roux and M. Imbard and C. Herbaut
+	and P. Fronier},
+  title = {Parallelization of the OPA ocean model},
+  journal = {Calculateurs Paralleles},
+  year = {1999},
+  volume = {11},  number = {4},
+  pages = {499--517}
+}
+
+@BOOK{Haltiner1980,
+  title = {Numerical prediction and dynamic meteorology},
+  publisher = {John Wiley {\&} Sons Eds., second edition},
+  year = {1980},
+  author = {G. J. Haltiner and R. T. Williams},
+  pages = {477pp}
+}
+
+@ARTICLE{Haney1991,
+  author = {R. L. Haney},
+  title = {On the Pressure Gradient Force over Steep Topography in Sigma Coordinate Ocean Models},
+  journal = JPO,
+  year = {1991},
+  volume = {21},  number = {4},
+  pages = {610--619},
+}
+
+@ARTICLE{Hazeleger_Drijfhout_JPO98,
+  author = {W. Hazeleger and S. S. Drijfhout},
+  title = {Mode water variability in a model of the subtropical gyre: response to anomalous forcing},
+  journal = JPO,
+  year = {1998},
+  volume = {28},
+  pages = {266--288},
+}
+
+@ARTICLE{Hazeleger_Drijfhout_JPO99,
+  author = {W. Hazeleger and S. S. Drijfhout},
+  title = {Stochastically forced mode water variability},
+  journal = JPO,
+  year = {1999},
+  volume = {29},
+  pages = {1772--1786},
+}
+
+@ARTICLE{Hazeleger_Drijfhout_JGR00,
+  author = {W. Hazeleger and S. S. Drijfhout},
+  title = {A model study on internally generated variability in subtropical mode water formation},
+  journal = JGR,
+  year = {2000},
+  volume = {105},
+  pages = {13,965--13,979},
+}
+@ARTICLE{Hazeleger_Drijfhout_JPO00,
+  author = {W. Hazeleger and S. S. Drijfhout},
+  title = {Eddy subduction in a model of the subtropical gyre},
+  journal = JPO,
+  year = {2000},
+  volume = {30},
+  pages = {677--695},
+}
+
+@ARTICLE{Hellerman_Rosenstein_JPO83,
+  author = {S. Hellerman and  M. Rosenstein },
+  title = {Normal monthly wind stress over the world ocean with error estimates},
+  journal = JPO,
+  year = {1983},
+  volume = {13},
+  pages = {1093--1104},
+}
+
+@ARTICLE{He_Ding_JSC01,
+  author = {Y. He and C. H. Q. Ding},
+  title = {Using Accurate Arithmetics to Improve Numerical Reproducibility and Stability in Parallel Applications},
+  journal = JSC,
+  year = {2001},
+  volume = {18},
+  pages = {259--277},
+}
+
+@ARTICLE{Hirt_al_JCP74,
+  author = {C. W. Hirt and A. A. Amsden and J. L. Cook},
+  title = {An Arbitrary Lagrangian--Eulerian Computing Method for All Flow Speeds},
+  journal = JCP,
+  year = {1974},
+  volume = {14},
+  pages = {227--253}
+}
+
+@ARTICLE{Hofmeister_al_OM09,
+  author = {R. Hofmeister and H. Burchard and J.-M. Beckers},
+  title = {Non-uniform adaptive vertical grids for 3D numerical ocean models},
+  journal = OM,
+  year = {2009},
+  volume = {33},
+  pages = {70--86},
+  doi = {10.1016/j.ocemod.2009.12.003},
+  url = {http://dx.doi.org/10.1016/j.ocemod.2009.12.003},
+  issn = {1463-5003},
+}
+
+@ARTICLE{Holland1999, 
+  author = {D. Holland and A. Jenkins},
+  title = {Modeling Thermodynamic Ice-Ocean Interactions at the Base of an Ice Shelf},
+  journal = JPO,
+  year = {1999},
+  volume = {29},  
+  pages = {1787--1800},
+}
+
+@ARTICLE{HollowayOM86,
+  author = {Greg Holloway},
+  title = {A Shelf Wave/Topographic Pump Drives Mean Coastal Circulation (part I)},
+  journal = OM,
+  year = {1986},
+  volume = {68},  
+}
+
+@ARTICLE{HollowayJPO92,
+  author = {Greg Holloway},
+  title = {Representing Topographic Stress for Large-Scale Ocean Models},
+  journal = JPO,
+  year = {1992},
+  volume = {22},  
+  pages = {1033--1046},
+}
+
+@ARTICLE{HollowayJPO94,
+  author = {Michael Eby and Greg Holloway},
+  title = {Sensitivity of a Large-Scale Ocean Model to a Parameterization of Topographic Stress},
+  journal = JPO,
+  year = {1994},
+  volume = {24},  
+  pages = {2577--2587},
+}
+
+@ARTICLE{HollowayJGR09,
+  author = {Greg Holloway and Zeliang Wang},
+  title = {Representing eddy stress in an Arctic Ocean model},
+  journal = JGR,
+  year = {2009},
+  doi = {10.1029/2008JC005169},  
+}
+
+@ARTICLE{HollowayOM08,
+  author = {Mathew Maltrud and Greg Holloway},
+  title = {Implementing biharmonic neptune in a global eddying ocean model},
+  journal = OM,
+  year = {2008},
+  volume = {21},  
+  pages = {22--34},
+}
+
+@ARTICLE{Hordoir_al_CD08,
+  author = {R. Hordoir and J. Polcher and J.-C. Brun-Cottan and G. Madec},
+  title = {Towards a parametrization of river discharges into ocean general
+	circulation models: a closure through energy conservation},
+  journal = CD,
+  year = {2008},
+  volume = {31},  number = {7-8},
+  pages = {891--908},
+  doi = {10.1007/s00382-008-0416-4},
+  url = {http://dx.doi.org/10.1007/s00382-008-0416-4}
+}
+
+@ARTICLE{Hsu1990,
+  author = {Hsu, Yueh-Jiuan G. and Arakawa, Akio},
+  title = {Numerical Modeling of the Atmosphere with an Isentropic Vertical Coordinate},
+  journal = MWR,
+  year = {1990},
+  volume = {118},  number = {10},
+  pages = {1933--1959},
+}
+
+@ARTICLE{Huang_JPO93,
+  author = {R.X. Huang},
+  title = {Real freshwater flux as a natural boundary condition for the salinity
+	balance and thermohaline circulation forced by evaporation and precipitation},
+  journal = JPO,
+  year = {1993},
+  volume = {23},
+  pages = {2428--2446}
+}
+
+@TECHREPORT{Hunke2008,
+  author = {E.C. Hunke and W.H. Lipscomb},
+  title = {CICE: the Los Alamos sea ice model documentation and software user's manual, 
+        Version 4.0},
+  institution = { Los Alamos National Laboratory, N.M.},
+  publisher = {LA-CC-06-012, Los Alamos National Laboratory, N.M.},
+  year = {2008}
+}
+
+@TechReport{Hunter2006,
+  Title                    = {Specification for Test Models of Ice Shelf Cavities},
+  Author                   = {J. R. Hunter},
+  Institution              = {Antarctic Climate \& Ecosystems Cooperative Research Centre Private Bag 80, Hobart, Tasmania 7001},
+  Year                     = {2006},
+}
+
+@TECHREPORT{TEOS10,
+  author = {IOC and SCOR and IAPSO},
+  title = {The international thermodynamic equation of seawater - 2010: Calculation and use of thermodynamic properties},
+  institution = {Intergovernmental Oceanographic Commission},
+  publisher = {Manuals and Guides No. 56, UNESCO (English)},
+  year = {2010},
+  pages = {196pp},
+  url = {http://www.teos-10.org/pubs/TEOS-10_Manual.pdf}
+}
+
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+  year = {2008},
+  volume = {38},
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+}
+
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+  journal = JPO,
+  year = {2008},
+  volume = {38},
+  pages = {1357--1376}
+}
+
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+  author = {D. Iudicone and K. Rodgers and R. Schopp and G. Madec},
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+  journal = JPO,
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+  volume = {37},
+  pages = {31--49}
+}
+
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+}
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+}
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+}
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+	doi = {10.1175/JPO-D-14-0027.1},
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+	year = {2014},
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+}
+
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+} 
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+  organization = {University of Hawaii at Manoa}
+}
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+  journal = CD,
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+}
+
+@ARTICLE{Koch-Larrouy_al_OD08b,
+  author = {A. Koch-Larrouy and G. Madec and B. Blanke and R. Molcard},
+  title = {Water mass transformation along the Indonesian throughflow in an OGCM},
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+  year = {2008},
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+  pages = {289--309},
+  doi = {10.1007/s10236-008-0155-4},
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+}
+
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+  author = {A. Koch-Larrouy and G. Madec and P. Bouruet-Aubertot and T. Gerkema and L. Bessieres and R. Molcard},
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+  journal = GRL,
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+  pages = {L04604},
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+  url = {http://dx.doi.org/10.1029/2006GL028405}
+}
+
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+  journal = OD,
+  year = {2008},
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+  pages = {275--288},
+  doi = {10.1007/s10236-008-0154-5},
+  url = {http://dx.doi.org/10.1007/s10236-008-0154-5}
+}
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+}
+
+
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+}
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+  year = {1996}
+}
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+  volume = {28}
+}
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+}
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+}
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+}
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+	id\'{e}alis\'{e}e},
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+  year = {1997}
+}
+
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+  author = {A. Lazar and G. Madec and P. Delecluse},
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+  journal = JPO,
+  year = {1999},
+  volume = {29},  number = {11},
+  pages = {2945--2961},
+}
+
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+  author = {J. {Le Sommer} and T. Penduff and S. Theetten and G. Madec and B.
+	Barnier},
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+	at eddy permitting resolution},
+  journal = OM,
+  year = {2009},
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+}
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+  school = {Universit\'{e} Pierre and Marie Curie},
+  year = {2010}
+}
+
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+  title = {A conservative leap-frog time stepping method},
+  journal = OM,
+  year = {2009},
+  volume = {30},  number = {2-3},
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+  doi = {10.1016/j.ocemod.2009.06.006},
+  url = {http://dx.doi.org/10.1016/j.ocemod.2009.06.006}
+}
+
+@ARTICLE{Leclair_Madec_OM11,
+  author = {M. Leclair and G. Madec},
+  title = {$\tilde{z}$-coordinate, an Arbitrary Lagrangian-Eulerian coordinate separating high and low frequency},
+  journal = OM,
+  year = {2011},
+  volume = {37},  pages = {139--152}, 
+  doi = {10.1016/j.ocemod.2011.02.001},
+  url = {http://dx.doi.org/10.1016/j.ocemod.2011.02.001}
+}
+
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+  year = {2003},
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+}
+
+@ARTICLE{Lengaigne_al_JGR02,
+  author = {M. Lengaigne and J.-P. Boulanger and C. Menkes and S. Masson and
+	G. Madec and P. Delecluse},
+  title = {Ocean response to the March 1997 Westerly Wind Event},
+  journal = JGR,
+  year = {2002},
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+}
+
+@ARTICLE{Lengaigne_al_JGR03,
+  author = {M. Lengaigne and G. Madec and G. Alory and C. Menkes},
+  title = {Sensitivity of the tropical Pacific Ocean to isopycnal diffusion
+	on tracer and dynamics},
+  journal = JGR,
+  year = {2003},
+  volume = {108},  number = {C11},
+  pages = {3345},
+  doi = {10.1029/2002JC001704},
+  url = {http://dx.doi.org/10.1029/2002JC001704}
+}
+
+@ARTICLE{Lengaigne_al_GRL09,
+  author = {M. Lengaigne and G. Madec and L. Bopp and C. Menkes and O. Aumont and P. Cadule},
+  title = {Bio-physical feedbacks in the Arctic Ocean using an Earth System model},
+  journal = GRL,
+  year = {2009},
+  volume = {36},  
+  pages = {L21602},
+  doi = {10.1029/2009GL040145},
+  url = {http://dx.doi.org/10.1029/2009GL040145}
+}
+
+@ARTICLE{Lengaigne_al_CD07,
+  author = {M. Lengaigne and C. Menkes and O. Aumont and T. Gorgues and L. Bopp and J.-M. Andr\'{e} G. Madec},
+  title = {Bio-physical feedbacks on the tropical Pacific climate in a Coupled
+	General Circulation Model},
+  journal = CD,
+  year = {2007},
+  volume = {28},
+  pages = {503--516}
+}
+
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+}
+
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+  author = {B. P. Leonard},
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+  year = {1988}
+}
+
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+}
+
+@TECHREPORT{Levier2007,
+  author = {B. Levier and A.-M. Tr\'{e}guier and G. Madec and V. Garnier},
+  title = {Free surface and variable volume in the NEMO code},
+  institution = {MERSEA MERSEA IP report WP09-CNRS-STR-03-1A, 47pp, available on the
+	NEMO web site},
+  year = {2007}
+}
+
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+}
+
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+  author = {M. Losch},
+  title = {Modeling ice shelf cavities in a z coordinate ocean general circulation model},
+  journal = JGR,
+  year = {2008},
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+}
+
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+  author = {F. Lott and G. Madec},
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+	Model OPA of the LODYC: formalism and experiments.},
+  institution = {LODYC, France, 36pp.},
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+}
+
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+}
+
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+  title = {Reducing climatology bias in an ocean-atmosphere CGCM with improved
+	coupling physics},
+  journal = JC,
+  year = {2005},
+  volume = {18},  number = {13},
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+}
+
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+  title = {NEMO ocean engine},
+  publisher = {Note du P\^ole de mod\'{e}lisation, Institut Pierre-Simon Laplace
+	(IPSL), France, No 27, ISSN No 1288-1619},
+  year = {2008},
+  author = {G. Madec}
+}
+
+@BOOK{Madec_HDR01,
+  title = {Le Cycle des Masses d'Eau Oc\'{e}aniqueset sa variabilit\'{e} dans le Syst\'{e}me Climatique},
+  year = {2001},
+  author = {G. Madec},
+  pages = {63pp.},
+  series = {Habilitation \'{a} Diriger des Recherches, Universit\'{e} Pierre et Marie Curie}
+}
+
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+  author = {G. Madec},
+  title = {La formation d'eau profonde et son impact sur la circulation r\'{e}gionale
+	en M\'{e}diterran\'{e}e Occidentale - une approche num\'{e}rique},
+  school = {Universit\'{e} Pierre et Marie Curie, Paris, France, 194pp.},
+  year = {1990},
+  month = {2 mai}
+}
+
+@ARTICLE{Madec_al_DAO91,
+  author = {G. Madec and M. Chartier and M. Cr\'{e}pon},
+  title = {Effect of thermohaline forcing variability on deep water formation
+	in the Northwestern Mediterranean Sea - a high resulution three-dimensional
+	study},
+  journal = DAO,
+  year = {1991},
+  volume = {15},
+  pages = {301--332}
+}
+
+@ARTICLE{Madec_al_JPO91,
+  author = {G. Madec and M. Chartier and P. Delecluse and M. Cr\'{e}pon},
+  title = {A three-dimensional numerical study of deep water formation in the Northwestern Mediterranean Sea .},
+  journal = JPO,
+  year = {1991},
+  volume = {21},
+  pages = {1349--1371}
+}
+
+@INBOOK{Madec_Crepon_Bk91,
+  chapter = {Thermohaline-driven deep water formation in the Northwestern Mediterranean
+	Sea},
+  pages = {241--265},
+  title = {Deep convection and deep water formation in the oceans},
+  publisher = {Elsevier Oceanographic Series, P.C. Chu and J.C. Gascard (Eds.)},
+  year = {1991},
+  author = {G. Madec and M. Cr\'{e}pon}
+  }
+
+@ARTICLE{Madec1997,
+  author = {G. Madec and P. Delecluse},
+  title = {The OPA/ARPEGE and OPA/LMD Global Ocean-Atmosphere Coupled Model},
+  journal = {Int. WOCE Newsletter},
+  year = {1997},
+  volume = {26},
+  pages = {12--15}
+}
+
+@TECHREPORT{Madec1998,
+  author = {G. Madec and P. Delecluse and M. Imbard and C. Levy},
+  title = {OPA 8 Ocean General Circulation Model - Reference Manual},
+  institution = {LODYC/IPSL Note 11},
+  year = {1998}
+}
+
+@ARTICLE{Madec_Imbard_CD96,
+  author = {G Madec and M Imbard},
+  title = {A global ocean mesh to overcome the north pole singularity},
+  journal = CD,
+  year = {1996},
+  volume = {12},
+  pages = {381--388}
+}
+
+@ARTICLE{Madec_al_JPO96,
+  author = {G. Madec and F. Lott and P. Delecluse and M. Cr\'{e}pon},
+  title = {Large-Scale Preconditioning of Deep-Water Formation in the Northwestern
+	Mediterranean Sea},
+  journal = JPO,
+  year = {1996},
+  volume = {26},  number = {8},
+  pages = {1393--1408},
+}
+
+@ARTICLE{Madec_al_OM88,
+  author = {G. Madec and C. Rahier and M. Chartier},
+  title = {A comparison of two-dimensional elliptic solvers for the streamfunction
+	in a multilevel OGCM},
+  journal = OM,
+  year = {1988},
+  volume = {78},
+  pages = {1-6}
+}
+
+@ARTICLE{Maes_al_CD98,
+  author = {C. Maes and P. Delecluse and G. Madec},
+  title = {Impact of westerly wind bursts on the warm pool of the TOGA-COARE
+	domain in an OGCM},
+  journal = CD,
+  year = {1998},
+  volume = {14},
+  pages = {55--70}
+}
+
+@ARTICLE{Maes_al_MWR97,
+  author = {C. Maes and G. Madec and P. Delecluse},
+  title = {Sensitivity of an Equatorial Pacific OGCM to the lateral diffusion},
+  journal = MWR,
+  year = {1997},
+  volume = {125},  number = {5},
+  pages = {958--971}
+}
+
+@ARTICLE{Maggiore_al_PCE98,
+  author = {A. Maggiore and  M. Zavatarelli and M. G. Angelucci and N. Pinardi},
+  title = {Surface heat and water fluxes in the Adriatic Sea: seasonal and interannual variability},
+  journal = {Phys Chem Earth},
+  year = {1998},
+  volume = {23},
+  pages = {561--567}
+}
+
+@ARTICLE{Maltrud1998,
+  author = {M. E. Maltrud and R. D. Smith and A. J. Semtner and R. C. Malone},
+  title = {Global eddy-resolving ocean simulations driven by 1985-1995 atmospheric
+	winds},
+  journal = JGR,
+  year = {1998},
+  volume = {103},  number = {C13},
+  pages = {30,825--30,854}
+}
+
+@ARTICLE{Marchesiello2001,
+  author = { P. Marchesiello and J. Mc Williams and A. Shchepetkin },
+  title = {Open boundary conditions for long-term integrations of Regional Oceanic
+	Models},
+  journal = OM,
+  year = {2001},
+  volume = {3},
+  pages = {1--20}
+}
+
+@ARTICLE{Marsaleix_al_OM08,
+  author = {P. Marsaleix and F. Auclair and J. W. Floor and M. J. Herrmann and
+	C. Estournel and I. Pairaud and C. Ulses},
+  title = {Energy conservation issues in sigma-coordinate free-surface ocean
+	models},
+  journal = OM,
+  year = {2008},
+  volume = {20},  number = {1},
+  pages = {61--89},
+  doi = {10.1016/j.ocemod.2007.07.005},
+  url = {http://dx.doi.org/10.1016/j.ocemod.2007.07.005}
+}
+
+@Article{Marsh_GMD2015,
+AUTHOR = {R. Marsh and V. O. Ivchenko and N. Skliris and S. Alderson and G. R. Bigg and G. Madec and A. T. Blaker and Y. Aksenov and B. Sinha and A. C. Coward and J. Le Sommer and N. Merino and V. B. Zalesny},
+TITLE = {NEMO-ICB (v1.0): interactive icebergs in the NEMO ocean model globally configured at eddy-permitting resolution},
+JOURNAL = {Geoscientific Model Development},
+VOLUME = {8},
+YEAR = {2015},
+NUMBER = {5},
+PAGES = {1547--1562},
+url = {HTTP://www.geosci-model-dev.net/8/1547/2015/},
+DOI = {10.5194/gmd-8-1547-2015}
+}
+
+@article{Martin_Adcroft_OM10,
+author = {T. Martin and A. Adcroft},
+title = {Parameterizing the fresh-water flux from land ice to ocean with interactive icebergs in a coupled climate model},
+journal = OM,
+year = {2010},
+volume = {34}, number = {3--4},
+pages = {111--124},
+issn = {1463-5003},
+doi = {10.1016/j.ocemod.2010.05.001},
+url = {http://dx.doi.org/10.1016/j.ocemod.2010.05.001}
+}
+
+@BOOK{MIT-GCM_2004,
+  title = {MIT-gcm User Manual},
+  year = {2004},
+  editor = {MIT Department of EAPS},
+  author = {J. Marshall and A. Adcroft and J.-M. Campin and P. Heimbach and A.
+	Molod and S. Dutkiewicz and H. Hill and M. Losch and B. Fox-Kemper
+	and D. Menemenlis and D. Ferreira and E. Hill and M. Follows and
+	C. Hill and C. Evangelinos and G. Forget}
+	}
+
+@PHDTHESIS{Marti_PhD92,
+  author = {O. Marti},
+  title = {Etude de l'oc\'{e}an mondial : mod\'{e}lisation de la circulation
+	et du transport de traceurs anthropog\'{e}niques},
+  school = {Universit\'{e} Pierre et Marie Curie, Paris, France, 201pp},
+  year = {1992}
+}
+
+@ARTICLE{Marti_al_CD10,
+  author = {O. Marti and P. Braconnot and J.-L. Dufresne and J. Bellier and R.
+	Benshila and S. Bony and P. Brockmann and P. Cadule and A. Caubel
+	and F Codron and S. Denvil and L. Fairhead and T. Fichefet and M.-A.
+	Filiberti and M.-A. Foujols and P. Friedlingstein and H. Goosse and
+	J.-Y. Grandpeix and E. Guilyardi and F. Hourdin and G. Krinner and
+	C. L\'{e}vy and G. Madec and J. Mignot and I. Musat and D. Swingedouw
+	and C. Talandier},
+  title = {Key features of the IPSL ocean atmosphere model and its sensitivity
+	to atmospheric resolution},
+  journal = CD,
+  year = {2010},
+  volume = {34},  number = {1},
+  pages = {1--26},
+  doi = {10.1007/s00382-009-0640-6},
+  url = {http://dx.doi.org/10.1007/s00382-009-0640-6}
+}
+
+@ARTICLE{Marti_al_JGR92,
+  author = {O. Marti and G. Madec and P. Delecluse},
+  title = {Comment on "Net diffusivity in ocean general circulation models with
+	nonuniform grids" by F. L. Yin and I. Y. Fung},
+  journal = JGR,
+  year = {1992},
+  volume = {97},
+  pages = {12,763--12,766}
+}
+
+@INBOOK{Masson_al_Bk08,
+  chapter = {OPA9 - French experiments on the Earth Simulator and Teraflop Workbench
+	tunings},
+  pages = {25-34},
+  title = {In High Performance computing on Vector System 2007, Stuttgart, Germany},
+  publisher = {Springer-Verlag},
+  year = {2008},
+  editor = {Resch M, Roller S, Lammers P, Furui T, Galle M, Bez W},
+  author = {S. Masson and M.-A. Foujols and P. Klein and G. Madec and L. Hua and M. Levy 
+  and H. Sasaki and K. Takahashi and F. Svensson},
+  doi = {10.1007/978-3-540-74384-2},
+  url = {http://dx.doi.org/10.1007/978-3-540-74384-2}
+}
+
+@ARTICLE{Masson_al_GRL05,
+  author = {S. Masson and J.-J. Luo and G. Madec and J. Vialard and F. Durand
+	and S. Gualdi and E. Guilyardi and S. Behera and P. Delecluse and
+	A. Navarra and T. Yamagata},
+  title = {Impact of barrier layer on winter-spring variability of the South-Eastern
+	Arabian Sea},
+  journal = GRL,
+  year = {2005},
+  volume = {32},
+  pages = {L07703},
+  doi = {10.1029/2004GL021980},
+  url = {http://dx.doi.org/10.1029/2004GL021980}
+}
+
+@ARTICLE{McDougall1987,
+  author = {T. J. McDougall},
+  title = {Neutral Surfaces},
+  journal = JPO,
+  year = {1987},
+  volume = {17},  number = {11},
+  pages = {1950--1964},
+}
+
+@ARTICLE{McDougall_Taylor_JMR84,
+  author = {T. J. McDougall and J. R. Taylor},
+  title = {Flux measurements across a finger interface at low values of the stability ratio},
+  journal = JMR,
+  year = {1984},
+  volume = {42},
+  pages = {1--14}
+}
+
+@ARTICLE{Mellor_Blumberg_JPO04,
+author = {G. Mellor and A. Blumberg},
+title = {Wave Breaking and Ocean Surface Layer Thermal Response},
+journal = JPO,
+volume = {34}, number = {3},
+pages = {693--698},
+year = {2004},
+doi = {10.1175/2517.1},
+URL = {http://journals.ametsoc.org/doi/abs/10.1175/2517.1}
+}
+
+@ARTICLE{Mellor_Yamada_1982,
+  author = {G. L. Mellor and T. Yamada},
+  title = {Development of a turbulence closure model for geophysical fluid problems},
+  journal = RGSP,
+  year = {1982},
+  volume = {20},
+  pages = {851--875}
+}
+
+@ARTICLE{Menkes_al_JPO06,
+  author = {C. Menkes and J. Vialard and S C. Kennan and J.-P. Boulanger and G. Madec},
+  title = {A modelling study of the three-dimensional heat budget of Tropical
+	 Instability Waves in the Equatorial Pacific},
+  journal = JPO,
+  year = {2006},
+  volume = {36},  number = {5},
+  pages = {847--865}
+}
+
+@ARTICLE{Merryfield1999,
+  author = {W. J. Merryfield and G. Holloway and A. E. Gargett},
+  title = {A Global Ocean Model with Double-Diffusive Mixing},
+  journal = JPO,
+  year = {1999},
+  volume = {29},  number = {6},
+  pages = {1124--1142}
+}
+
+@BOOK{Mesinger_Arakawa_Bk76,
+  title = {Numerical methods used in Atmospheric models},
+  publisher = {GARP Publication Series No 17},
+  year = {1976},
+  author = {F. Mesinger and A. Arakawa}
+}
+
+@ARTICLE{Morel_JGR88,
+  author = {A. Morel},
+  title = {Optical modeling of the upper ocean in relation to its biogenous matter content (Case I waters)},
+  journal = JGR,
+  year = {1988},
+  volume = {93},
+  pages = {10,749--10,768}
+}
+
+
+@ARTICLE{Morel_Berthon_LO89,
+  author = {A. Morel and J.-F. Berthon},
+  title = {Surface pigments, algal biomass profiles, and potential production of the euphotic layer: 
+           Relationships reinvestigated in view of remote-sensing applications},
+  journal = {Limnol. Oceanogr.},
+  year = {1989},
+  volume = {34(8)},
+  pages = {1545--1562}
+}
+
+@ARTICLE{Morel_Maritorena_JGR01,
+  author = {A. Morel and S. Maritorena},
+  title = {Bio-optical properties of oceanic waters: a reappraisal},
+  journal = JGR,
+  year = {2001},
+  volume = {106}, number = {C4},
+  pages = {7163--7180}
+}
+
+@ARTICLE{Moun_al_JPO02,
+  author = {J.N. Moum and D.R. Caldwell and J.D. Nash and G.D. Gunderson},
+  title = {Observations of boundary mixing over the continental slope},
+  journal = JPO,
+  year = {2002},
+  volume = {32}, number = {7},
+  pages = {2113--2130}
+}
+
+@ARTICLE{Murray_JCP96,
+  author = {R. J. Murray},
+  title = {Explicit Generation of Orthogonal Grids for Ocean Models},
+  journal = JCP,
+  year = {1996},
+  volume = {126},  number = {2},
+  pages = {251--273},
+}
+
+@ARTICLE{Oddo_al_OS09,
+  author = {P. Oddo and M. Adani and N. Pinardi and C. Fratianni and M. Tonani and D. Pettenuzzo},
+  title = {A nested Atlantic-Mediterranean Sea general circulation model for operational forecasting},
+  journal = OS,
+  year = {2009},
+  volume = {5},
+  pages = {1--13},
+}
+
+@PHDTHESIS{Olivier_PhD01,
+  author = {F. Olivier},
+  title = {Etude de l'activit\'{e} biologique et de la circulation oc\'{e}anique
+	dans un jet g\'{e}ostrophique: le front Alm\'{e}ria-Oran},
+  school = {Universit\'{e} Pierre et Marie Curie, Paris, France},
+  year = {2001}
+}
+
+@ARTICLE{Osborn_JPO80,
+  author = {T.R. Osborn},
+  title = {Estimates of the local rate of vertical diﬀusion from dissipation measurements},
+  journal = JPO,
+  year = {1980},
+  volume = {10},
+  pages = {83--89}
+}
+
+@ARTICLE{Pacanowski_Philander_JPO81,
+  author = {R.C. Pacanowski and S.G.H. Philander},
+  title = {Parameterization of Vertical Mixing in Numerical Models of Tropical Oceans},
+  journal = JPO,
+  year = {1981},
+  volume = {11},  number = {11},
+  pages = {1443--1451}
+}
+
+@ARTICLE{Pacanowski_Gnanadesikan_MWR98,
+  author = {R. C. Pacanowski and A. Gnanadesikan},
+  title = {Transient response in a z-level ocean model that resolves topography with partial-cells},
+  journal = MWR,
+  year = {1998},
+  volume = {126},
+  pages = {3248--3270}
+}
+
+@ARTICLE{Park_al_JC09,
+  author = {W. Park and N. Keenlyside and M. Latif and A. Str\¨{o}h and R. Redler and E. Roeckner and G. Madec},
+  title = {Tropical Pacific Climate and its Response to Global Warming in the
+	Kiel Climate Model},
+  journal = JC,
+  year = {2009},
+  volume = {22},  number = {1},
+  pages = {71--92},
+  doi = {10.1175/2008JCLI2261.1},
+  url = {http://dx.doi.org/10.1175/2008JCLI2261.1}
+}
+
+@ARTICLE{Paulson1977,
+  author = {C. A. Paulson and J. J. Simpson},
+  title = {Irradiance Measurements in the Upper Ocean},
+  journal = JPO,
+  year = {1977},
+  volume = {7},  number = {6},
+  pages = {952--956}
+}
+
+@ARTICLE{Payne_JAS72,
+  author = {R. E. Payne},
+  title = {Albedo of the Sea Surface},
+  journal = JAS,
+  year = {1972},
+  volume = {29},
+  pages = {959--970}
+}
+
+@ARTICLE{Penduff_al_OM06,
+  author = {T. Penduff and B. Barnier and J.-M. Molines and G. Madec},
+  title = {On the use of current meter data to assess the realism of ocean model simulations},
+  journal = OM,
+  year = {2006},
+  volume = {11},  number = {3--4},
+  pages = {399--416}
+}
+
+@ARTICLE{Penduff_al_JGR00,
+  author = {T. Penduff and B. Barnier and A. Colin de Verdi\`{e}re},
+  title = {Self-adapting open boundaries for a regional model of the eastern North Atlantic},
+  journal = JGR,
+  year = {2000},
+  volume = {105},
+  pages = {11,279--11,297}
+}
+
+@ARTICLE{Penduff_al_OS07,
+  author = {T. Penduff and J. Le Sommer and B. Barnier and A.M. Treguier and J. Molines and G. Madec},
+  title = {Influence of numerical schemes on current-topography interactions
+	in 1/4$^{\circ}$ global ocean simulations},
+  journal = OS,
+  year = {2007},
+  volume = {3},
+  pages = {509--524}
+}
+
+@ARTICLE{Phillips1959,
+  author = {R. S. Phillips},
+  title = {Dissipative Operators and Hyperbolic Systems of Partial Differential Equations},
+  journal = {Transactions of the American Mathematical Society},
+  year = {1959},
+  volume = {90},  number = {2},
+  pages = {193--254},
+  doi = {10.2307/1993202},
+  url = {http://dx.doi.org/10.2307/1993202}
+}
+
+@ARTICLE{Le_Quere_al_GBC00,
+  author = {C. Le Qu\'{e}r\'{e} and J. C. Orr and P. Monfray and O. Aumont and G. Madec},
+  title = {Interannual variability of the global and regional sea-air flux of C02 from 1979 to 1993},
+  journal = GBC,
+  year = {2000},
+  volume = {14},
+  pages = {1247--1266}
+}
+
+@ARTICLE{Raynaud_al_GRL00,
+  author = {S. Raynaud and S. Speich and E. Guilyardi and G. Madec},
+  title = {Impact of the ocean lateral diffusion on the ENSO-like variability of a global coupled GCM},
+  journal = GRL,
+  year = {2000},
+  volume = {27},  number = {19},
+  pages = {3041--3044}
+}
+
+@ARTICLE{Redi_JPO82,
+  author = {M. H. Redi},
+  title = {Oceanic isopycnal mixing by coordinate rotation},
+  journal = JPO,
+  year = {1982},
+  volume = {13},
+  pages = {1154--1158}
+}
+
+@ARTICLE{Reed_JPO77,
+  author = {R. K. Reed},
+  title = {On estimating insolation over the ocean},
+  journal = JPO,
+  year = {1977},
+  volume = {1},
+  pages = {874--971}
+}
+
+@ARTICLE{Reverdin1991,
+  author = {G. Reverdin and P. Delecluse and C. L\'{e}vy and P. Andrich and A. Morli\`{e}re and J. M. Verstraete},
+  title = {The near surface tropical Atlantic in 1982-1984 : results from a numerical simulation and a data analysis},
+  journal = PO,
+  year = {1991},
+  volume = {27},
+  pages = {273--340}
+}
+
+@BOOK{Richtmyer1967,
+  title = {Difference methods for initial-value problems},
+  publisher = {Interscience Publisher, Second Edition},
+  year = {1967},
+  author = {R. D. Richtmyer and K. W. Morton},
+  pages = {405pp}
+}
+
+@ARTICLE{Robert_JMSJ66,
+  author = {A. J. Robert},
+  title = {The integration of a Low order spectral form of the primitive meteorological equations},
+  journal = JMSJ,
+  year = {1966},
+  volume = {44},  number = {2}
+}
+
+@ARTICLE{Rodgers_al_GRL04,
+  author = {K. Rodgers and O. Aumont and G. Madec and C. Menkes},
+  title = {Radiocarbon as a thermocline proxy for the eastern equatorial Pacific},
+  journal = GRL,
+  year = {2004},
+  volume = {31},
+  pages = {L14314},
+  doi = {10.1029/2004GL019764},
+  url = {http://dx.doi.org/10.1029/2004GL019764}
+}
+
+@ARTICLE{Rodgers_al_GRL03,
+  author = {K. Rodgers and B. Blanke and G. Madec and O. Aumont and P. Ciais and J.-C. Dutay},
+  title = {Extratropical sources of equatorial pacific upwelling in an OGCM},
+  journal = GRL,
+  year = {2003},
+  volume = {30},  number = {2},
+  doi = {10.1029/2002GL016003},
+  url = {http://dx.doi.org/10.1029/2002GL016003}
+}
+
+@Article{Rodgers_2014,
+AUTHOR = {Rodgers, K. B. and Aumont, O. and Mikaloff Fletcher, S. E. and Plancherel, Y. and Bopp, L. and de Boyer Mont\'egut, C. and Iudicone, D. and Keeling, R. F. and Madec, G. and Wanninkhof, R.},
+TITLE = {Strong sensitivity of Southern Ocean carbon uptake and nutrient cycling to wind stirring},
+JOURNAL = {Biogeosciences},
+VOLUME = {11},
+YEAR = {2014},
+NUMBER = {15},
+PAGES = {4077--4098},
+URL = {HTTP://www.biogeosciences.net/11/4077/2014/},
+DOI = {10.5194/bg-11-4077-2014}
+}
+
+@ARTICLE{Rodi_1987,
+  author = {W. Rodi},
+  title = {Examples of calculation methods for flow and mixing in stratified fluids},
+  journal = JGR,
+  year = {1987},
+  volume = {92},  number = {C5},
+  pages = {5305--5328}
+}
+
+@INCOLLECTION{Roed1986,
+  author = {L.P. Roed and C.K. Cooper},
+  title = {Open boundary conditions in numerical ocean models},
+  booktitle = {Advanced Physical Oceanography Numerical Modelling},
+  publisher = { NATO ASI Series, vol. 186.},
+  year = {1986},
+  editor = {J.J. O'Brien}
+}
+
+@article{Roquet_OM2015,
+author = "F. Roquet and G. Madec and T.J. McDougall and P.M. Barker",
+title = "Accurate polynomial expressions for the density and specific volume of seawater using the TEOS-10 standard ",
+journal = OM,
+volume = "90",
+pages = "29--43",
+year = "2015",
+issn = "1463-5003",
+doi = "10.1016/j.ocemod.2015.04.002",
+url = "http://dx.doi.org/10.1016/j.ocemod.2015.04.002"
+}
+
+@article{Roquet_JPO2015,
+author = "F. Roquet and G. Madec and L. Brodeau and J. Nycander",
+title = "Defining a Simplified Yet Realistic Equation of State for Seawater",
+journal = JPO,
+volume = "45",
+pages = "2564--2579",
+year = "2015",
+doi = "10.1175/JPO-D-15-0080.1",
+url = "http://dx.doi.org/10.1175/JPO-D-15-0080.1"
+}
+
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+}
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+}
+
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+}
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+}
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+  author = {L. Umlauf and H. Burchard},
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+}
+
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+}
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+}
+
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+  pages = {64pp}
+}
+
+@TECHREPORT{Valcke_al_Rep00,
+  author = {S. Valcke and L. Terray and A. Piacentini },
+  title = {The OASIS Coupled User Guide Version 2.4},
+  institution = {CERFACS},
+  year = {2000},
+  number = {TR/CMGC/00-10}
+}
+
+@ARTICLE{Vancoppenolle_al_OM09b,
+  author = {M. Vancoppenolle and T. Fichefet and H. Goosse},
+  title = {Simulating the mass balance and salinity of Arctic and Antarctic sea ice. 2. 
+     Importance of sea ice salinity variations},
+  journal = OM,
+  year = {2009},
+  volume = {27},
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+}
+
+@book{Vallis06,
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+publisher = {Cambridge University Press},
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+year = {2006},
+pages = {745},
+}
+
+@ARTICLE{Vancoppenolle_al_OM09a,
+  author = {M. Vancoppenolle and T. Fichefet and H. Goosse and S. Bouillon and
+	G. Madec and M. A. Morales Maqueda},
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+}
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+
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+}
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+}
+
+@ARTICLE{Williams_al_GRL07,
+  author = {P.D. Williams and E. Guilyardi and R. Sutton and J.M. Gregory and G. Madec},
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+  pages = {L08706},
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+  url = {http://dx.doi.org/10.1029/2007GL029275}
+}
+
+@ARTICLE{Williams_al_CD06,
+  author = {P.D. Williams and E. Guilyardi and R. Sutton and J.M. Gregory and G. Madec},
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+}
+
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+
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+}
+
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+++ /branches/2015/nemo_v3_6_STABLE/DOC/TexFiles/Chapters/Abstracts_Foreword.tex	(revision 6992)
@@ -1,2 +1,4 @@
+%\documentclass[NEMO_book]{subfiles}
+%\begin{document}
 
 % ================================================================
@@ -24,20 +26,20 @@
 
 % ================================================================
- \vspace{0.5cm}
+% \vspace{0.5cm}
 
-Le moteur oc\'{e}anique de NEMO (Nucleus for European Modelling of the Ocean) est un 
-mod\`{e}le aux \'{e}quations primitives de la circulation oc\'{e}anique r\'{e}gionale et globale. 
-Il se veut un outil flexible pour \'{e}tudier sur un vaste spectre spatiotemporel l'oc\'{e}an et ses 
-interactions avec les autres composantes du syst\`{e}me climatique terrestre. 
-Les variables pronostiques sont le champ tridimensionnel de vitesse, une hauteur de la mer 
-lin\'{e}aire, la Temp\'{e}rature Conservative et la Salinit\'{e} Absolue. 
-La distribution des variables se fait sur une grille C d'Arakawa tridimensionnelle utilisant une 
-coordonn\'{e}e verticale $z$ \`{a} niveaux entiers ou partiels, ou une coordonn\'{e}e s, ou encore 
-une combinaison des deux. Diff\'{e}rents choix sont propos\'{e}s pour d\'{e}crire la physique 
-oc\'{e}anique, incluant notamment des physiques verticales TKE et GLS. A travers l'infrastructure 
-NEMO, l'oc\'{e}an est interfac\'{e} avec des mod\`{e}les de glace de mer (LIM ou CICE), 
-de biog\'{e}ochimie marine et de traceurs passifs, et, via le coupleur OASIS, \`{a} plusieurs 
-mod\`{e}les de circulation g\'{e}n\'{e}rale atmosph\'{e}rique. 
-Il supporte \'{e}galement l'embo\^{i}tement interactif de maillages via le logiciel AGRIF.
+%Le moteur oc\'{e}anique de NEMO (Nucleus for European Modelling of the Ocean) est un 
+%mod\`{e}le aux \'{e}quations primitives de la circulation oc\'{e}anique r\'{e}gionale et globale. 
+%Il se veut un outil flexible pour \'{e}tudier sur un vaste spectre spatiotemporel l'oc\'{e}an et ses 
+%interactions avec les autres composantes du syst\`{e}me climatique terrestre. 
+%Les variables pronostiques sont le champ tridimensionnel de vitesse, une hauteur de la mer 
+%lin\'{e}aire, la Temp\'{e}rature Conservative et la Salinit\'{e} Absolue. 
+%La distribution des variables se fait sur une grille C d'Arakawa tridimensionnelle utilisant une 
+%coordonn\'{e}e verticale $z$ \`{a} niveaux entiers ou partiels, ou une coordonn\'{e}e s, ou encore 
+%une combinaison des deux. Diff\'{e}rents choix sont propos\'{e}s pour d\'{e}crire la physique 
+%oc\'{e}anique, incluant notamment des physiques verticales TKE et GLS. A travers l'infrastructure 
+%NEMO, l'oc\'{e}an est interfac\'{e} avec des mod\`{e}les de glace de mer (LIM ou CICE), 
+%de biog\'{e}ochimie marine et de traceurs passifs, et, via le coupleur OASIS, \`{a} plusieurs 
+%mod\`{e}les de circulation g\'{e}n\'{e}rale atmosph\'{e}rique. 
+%Il supporte \'{e}galement l'embo\^{i}tement interactif de maillages via le logiciel AGRIF.
 } 
 
@@ -69,2 +71,3 @@
  \vspace{0.5cm}
 
+%\end{document}
Index: /branches/2015/nemo_v3_6_STABLE/DOC/TexFiles/Chapters/Annex_A.tex
===================================================================
--- /branches/2015/nemo_v3_6_STABLE/DOC/TexFiles/Chapters/Annex_A.tex	(revision 6991)
+++ /branches/2015/nemo_v3_6_STABLE/DOC/TexFiles/Chapters/Annex_A.tex	(revision 6992)
@@ -1,2 +1,4 @@
+%\documentclass[NEMO_book]{subfiles}
+%\begin{document}
 
 % ================================================================
@@ -532,2 +534,3 @@
 expression of the 3D divergence in the $s-$coordinates established above. 
 
+%\end{document}
Index: /branches/2015/nemo_v3_6_STABLE/DOC/TexFiles/Chapters/Annex_B.tex
===================================================================
--- /branches/2015/nemo_v3_6_STABLE/DOC/TexFiles/Chapters/Annex_B.tex	(revision 6991)
+++ /branches/2015/nemo_v3_6_STABLE/DOC/TexFiles/Chapters/Annex_B.tex	(revision 6992)
@@ -1,2 +1,4 @@
+%\documentclass[NEMO_book]{subfiles}
+%\begin{document}
 % ================================================================
 % Chapter Ñ Appendix B : Diffusive Operators
@@ -364,2 +366,3 @@
 \eqref{Apdx_B_Lap_U} is used in both $z$- and $s$-coordinate systems, that is
 a Laplacian diffusion is applied on momentum along the coordinate directions.
+%\end{document}
Index: /branches/2015/nemo_v3_6_STABLE/DOC/TexFiles/Chapters/Annex_C.tex
===================================================================
--- /branches/2015/nemo_v3_6_STABLE/DOC/TexFiles/Chapters/Annex_C.tex	(revision 6991)
+++ /branches/2015/nemo_v3_6_STABLE/DOC/TexFiles/Chapters/Annex_C.tex	(revision 6992)
@@ -1,2 +1,4 @@
+%\documentclass[NEMO_book]{subfiles}
+%\begin{document}
 % ================================================================
 % Chapter Ñ Appendix C : Discrete Invariants of the Equations
@@ -1531,2 +1533,3 @@
 %%%%  end of appendix in gm comment
 %}
+%\end{document}
Index: /branches/2015/nemo_v3_6_STABLE/DOC/TexFiles/Chapters/Annex_D.tex
===================================================================
--- /branches/2015/nemo_v3_6_STABLE/DOC/TexFiles/Chapters/Annex_D.tex	(revision 6991)
+++ /branches/2015/nemo_v3_6_STABLE/DOC/TexFiles/Chapters/Annex_D.tex	(revision 6992)
@@ -1,2 +1,4 @@
+%\documentclass[NEMO_book]{subfiles}
+%\begin{document}
 % ================================================================
 % Appendix D Ñ Coding Rules
@@ -202,2 +204,3 @@
 
 To be done....
+%\end{document}
Index: /branches/2015/nemo_v3_6_STABLE/DOC/TexFiles/Chapters/Annex_E.tex
===================================================================
--- /branches/2015/nemo_v3_6_STABLE/DOC/TexFiles/Chapters/Annex_E.tex	(revision 6991)
+++ /branches/2015/nemo_v3_6_STABLE/DOC/TexFiles/Chapters/Annex_E.tex	(revision 6992)
@@ -1,2 +1,4 @@
+%\documentclass[NEMO_book]{subfiles}
+%\begin{document}
 % ================================================================
 % Appendix E : Note on some algorithms
@@ -299,5 +301,5 @@
 \begin{figure}[!ht] \label{Fig_ISO_triad}
 \begin{center}
-\includegraphics[width=0.70\textwidth]{./TexFiles/Figures/Fig_ISO_triad.pdf}
+\includegraphics[width=0.70\textwidth]{Fig_ISO_triad}
 \caption{  \label{Fig_ISO_triad}   
 Triads used in the Griffies's like iso-neutral diffision scheme for 
@@ -806,2 +808,3 @@
 tracer is preserved by the discretisation of the skew fluxes.
 
+%\end{document}
Index: /branches/2015/nemo_v3_6_STABLE/DOC/TexFiles/Chapters/Annex_ISO.tex
===================================================================
--- /branches/2015/nemo_v3_6_STABLE/DOC/TexFiles/Chapters/Annex_ISO.tex	(revision 6991)
+++ /branches/2015/nemo_v3_6_STABLE/DOC/TexFiles/Chapters/Annex_ISO.tex	(revision 6992)
@@ -1,2 +1,4 @@
+%\documentclass[NEMO_book]{subfiles}
+%\begin{document}
 % ================================================================
 % Iso-neutral diffusion :
@@ -201,5 +203,5 @@
 % >>>>>>>>>>>>>>>>>>>>>>>>>>>>
 \begin{figure}[h] \begin{center}
-    \includegraphics[width=1.05\textwidth]{./TexFiles/Figures/Fig_GRIFF_triad_fluxes}
+    \includegraphics[width=1.05\textwidth]{Fig_GRIFF_triad_fluxes}
     \caption{ \label{fig:triad:ISO_triad}
       (a) Arrangement of triads $S_i$ and tracer gradients to
@@ -269,5 +271,5 @@
 % >>>>>>>>>>>>>>>>>>>>>>>>>>>>
 \begin{figure}[h] \begin{center}
-    \includegraphics[width=0.80\textwidth]{./TexFiles/Figures/Fig_GRIFF_qcells}
+    \includegraphics[width=0.80\textwidth]{Fig_GRIFF_qcells}
     \caption{   \label{fig:triad:qcells}
     Triad notation for quarter cells. $T$-cells are inside
@@ -676,5 +678,5 @@
 % >>>>>>>>>>>>>>>>>>>>>>>>>>>>
 \begin{figure}[h] \begin{center}
-    \includegraphics[width=0.60\textwidth]{./TexFiles/Figures/Fig_GRIFF_bdry_triads}
+    \includegraphics[width=0.60\textwidth]{Fig_GRIFF_bdry_triads}
     \caption{  \label{fig:triad:bdry_triads}
       (a) Uppermost model layer $k=1$ with $i,1$ and $i+1,1$ tracer
@@ -849,5 +851,5 @@
     different $i_p,k_p$, denoted by different colours, (e.g. the green
     triad $i_p=1/2,k_p=-1/2$) are tapered to the appropriate basal triad.}}
-  {\includegraphics[width=0.60\textwidth]{./TexFiles/Figures/Fig_GRIFF_MLB_triads}}
+  {\includegraphics[width=0.60\textwidth]{Fig_GRIFF_MLB_triads}}
 \end{figure}
 % >>>>>>>>>>>>>>>>>>>>>>>>>>>>
@@ -1193,2 +1195,3 @@
 \end{split}
 \end{equation}
+%\end{document}
Index: /branches/2015/nemo_v3_6_STABLE/DOC/TexFiles/Chapters/Chap_ASM.tex
===================================================================
--- /branches/2015/nemo_v3_6_STABLE/DOC/TexFiles/Chapters/Chap_ASM.tex	(revision 6991)
+++ /branches/2015/nemo_v3_6_STABLE/DOC/TexFiles/Chapters/Chap_ASM.tex	(revision 6992)
@@ -1,2 +1,4 @@
+%\documentclass[NEMO_book]{subfiles}
+%\begin{document}
 % ================================================================
 % Chapter Assimilation increments (ASM)
@@ -172,2 +174,3 @@
 \end{verbatim}
 \end{alltt}
+%\end{document}
Index: /branches/2015/nemo_v3_6_STABLE/DOC/TexFiles/Chapters/Chap_CFG.tex
===================================================================
--- /branches/2015/nemo_v3_6_STABLE/DOC/TexFiles/Chapters/Chap_CFG.tex	(revision 6991)
+++ /branches/2015/nemo_v3_6_STABLE/DOC/TexFiles/Chapters/Chap_CFG.tex	(revision 6992)
@@ -1,2 +1,4 @@
+%\documentclass[NEMO_book]{subfiles}
+%\begin{document}
 % ================================================================
 % Chapter � Configurations
@@ -88,7 +90,7 @@
 %>>>>>>>>>>>>>>>>>>>>>>>>>>>>
 \begin{figure}[!t]   \begin{center}
-\includegraphics[width=0.98\textwidth]{./TexFiles/Figures/Fig_ORCA_NH_mesh.pdf}
+\includegraphics[width=0.98\textwidth]{Fig_ORCA_NH_mesh}
 \caption{  \label{Fig_MISC_ORCA_msh}     
-ORCA mesh conception. The departure from an isotropic Mercator grid start poleward of 20\deg N.
+ORCA mesh conception. The departure from an isotropic Mercator grid start poleward of 20\degN.
 The two "north pole" are the foci of a series of embedded ellipses (blue curves) 
 which are determined analytically and form the i-lines of the ORCA mesh (pseudo latitudes). 
@@ -115,11 +117,11 @@
 %>>>>>>>>>>>>>>>>>>>>>>>>>>>>
 \begin{figure}[!tbp]  \begin{center}
-\includegraphics[width=1.0\textwidth]{./TexFiles/Figures/Fig_ORCA_NH_msh05_e1_e2.pdf}
-\includegraphics[width=0.80\textwidth]{./TexFiles/Figures/Fig_ORCA_aniso.pdf}
+\includegraphics[width=1.0\textwidth]{Fig_ORCA_NH_msh05_e1_e2}
+\includegraphics[width=0.80\textwidth]{Fig_ORCA_aniso}
 \caption {  \label{Fig_MISC_ORCA_e1e2}
 \textit{Top}: Horizontal scale factors ($e_1$, $e_2$) and 
 \textit{Bottom}: ratio of anisotropy ($e_1 / e_2$)
-for ORCA 0.5\deg ~mesh. South of 20\deg N a Mercator grid is used ($e_1 = e_2$) 
-so that the anisotropy ratio is 1. Poleward of 20\deg N, the two "north pole" 
+for ORCA 0.5\deg ~mesh. South of 20\degN a Mercator grid is used ($e_1 = e_2$) 
+so that the anisotropy ratio is 1. Poleward of 20\degN, the two "north pole" 
 introduce a weak anisotropy over the ocean areas ($< 1.2$) except in vicinity of Victoria Island 
 (Canadian Arctic Archipelago). }
@@ -129,5 +131,5 @@
 
 The method is applied to Mercator grid ($i.e.$ same zonal and meridional grid spacing) poleward 
-of $20\deg$N, so that the Equator is a mesh line, which provides a better numerical solution 
+of 20\degN, so that the Equator is a mesh line, which provides a better numerical solution 
 for equatorial dynamics. The choice of the series of embedded ellipses (position of the foci and 
 variation of the ellipses) is a compromise between maintaining  the ratio of mesh anisotropy 
@@ -178,5 +180,5 @@
 The ORCA\_R2 configuration has the following specificity : starting from a 2\deg~ORCA mesh, 
 local mesh refinements were applied to the Mediterranean, Red, Black and Caspian Seas, 
-so that the resolution is $1\deg \time 1\deg$ there. A local transformation were also applied 
+so that the resolution is 1\deg \time 1\deg there. A local transformation were also applied 
 with in the Tropics in order to refine the meridional resolution up to 0.5\deg at the Equator.
 
@@ -227,5 +229,5 @@
 
 The domain geometry is a closed rectangular basin on the $\beta$-plane centred 
-at $\sim 30\deg$N and rotated by 45\deg, 3180~km long, 2120~km wide 
+at $\sim$ 30\degN and rotated by 45\deg, 3180~km long, 2120~km wide 
 and 4~km deep (Fig.~\ref{Fig_MISC_strait_hand}). 
 The domain is bounded by vertical walls and by a flat bottom. The configuration is 
@@ -234,5 +236,5 @@
 The applied forcings vary seasonally in a sinusoidal manner between winter 
 and summer extrema \citep{Levy_al_OM10}. 
-The wind stress is zonal and its curl changes sign at 22\deg N and 36\deg N. 
+The wind stress is zonal and its curl changes sign at 22\degN and 36\degN. 
 It forces a subpolar gyre in the north, a subtropical gyre in the wider part of the domain 
 and a small recirculation gyre in the southern corner. 
@@ -261,5 +263,5 @@
 %>>>>>>>>>>>>>>>>>>>>>>>>>>>>
 \begin{figure}[!t]   \begin{center}
-\includegraphics[width=1.0\textwidth]{./TexFiles/Figures/Fig_GYRE.pdf}
+\includegraphics[width=1.0\textwidth]{Fig_GYRE}
 \caption{  \label{Fig_GYRE}   
 Snapshot of relative vorticity at the surface of the model domain 
@@ -311,2 +313,3 @@
 temperature data.
 
+%\end{document}
Index: /branches/2015/nemo_v3_6_STABLE/DOC/TexFiles/Chapters/Chap_Conservation.tex
===================================================================
--- /branches/2015/nemo_v3_6_STABLE/DOC/TexFiles/Chapters/Chap_Conservation.tex	(revision 6991)
+++ /branches/2015/nemo_v3_6_STABLE/DOC/TexFiles/Chapters/Chap_Conservation.tex	(revision 6992)
@@ -1,2 +1,4 @@
+%\documentclass[NEMO_book]{subfiles}
+%\begin{document}
 
 % ================================================================
@@ -333,2 +335,3 @@
 not been implemented.
 
+%\end{document}
Index: /branches/2015/nemo_v3_6_STABLE/DOC/TexFiles/Chapters/Chap_DIA.tex
===================================================================
--- /branches/2015/nemo_v3_6_STABLE/DOC/TexFiles/Chapters/Chap_DIA.tex	(revision 6991)
+++ /branches/2015/nemo_v3_6_STABLE/DOC/TexFiles/Chapters/Chap_DIA.tex	(revision 6992)
@@ -1,2 +1,4 @@
+%\documentclass[NEMO_book]{subfiles}
+%\begin{document}
 % ================================================================
 % Chapter I/O & Diagnostics
@@ -1478,5 +1480,5 @@
 - the turbocline depth (based on a turbulent mixing coefficient criterion) (\mdl{diahth})
 
-- the depth of the 20\deg C isotherm (\mdl{diahth})
+- the depth of the 20\degC isotherm (\mdl{diahth})
 
 - the depth of the thermocline (maximum of the vertical temperature gradient) (\mdl{diahth})
@@ -1486,5 +1488,5 @@
 \np{ln\_diaptr} to true (see the \textit{\ngn{namptr} } namelist below).  
 When \np{ln\_subbas}~=~true, transports and stream function are computed 
-for the Atlantic, Indian, Pacific and Indo-Pacific Oceans (defined north of 30\deg S) 
+for the Atlantic, Indian, Pacific and Indo-Pacific Oceans (defined north of 30\degS) 
 as well as for the World Ocean. The sub-basin decomposition requires an input file 
 (\ifile{subbasins}) which contains three 2D mask arrays, the Indo-Pacific mask 
@@ -1496,5 +1498,5 @@
 %>>>>>>>>>>>>>>>>>>>>>>>>>>>>
 \begin{figure}[!t] 	  \begin{center}
-\includegraphics[width=1.0\textwidth]{./TexFiles/Figures/Fig_mask_subasins.pdf}
+\includegraphics[width=1.0\textwidth]{Fig_mask_subasins}
 \caption{	\label{Fig_mask_subasins}
 Decomposition of the World Ocean (here ORCA2) into sub-basin used in to compute
@@ -1682,2 +1684,3 @@
 
 
+%\end{document}
Index: /branches/2015/nemo_v3_6_STABLE/DOC/TexFiles/Chapters/Chap_DOM.tex
===================================================================
--- /branches/2015/nemo_v3_6_STABLE/DOC/TexFiles/Chapters/Chap_DOM.tex	(revision 6991)
+++ /branches/2015/nemo_v3_6_STABLE/DOC/TexFiles/Chapters/Chap_DOM.tex	(revision 6992)
@@ -1,2 +1,4 @@
+%\documentclass[NEMO_book]{subfiles}
+%\begin{document}
 % ================================================================
 % Chapter 2 ——— Space and Time Domain (DOM)
@@ -40,5 +42,5 @@
 %>>>>>>>>>>>>>>>>>>>>>>>>>>>>
 \begin{figure}[!tb]    \begin{center}
-\includegraphics[width=0.90\textwidth]{./TexFiles/Figures/Fig_cell.pdf}
+\includegraphics[width=0.90\textwidth]{Fig_cell}
 \caption{ \label{Fig_cell}    
 Arrangement of variables. $t$ indicates scalar points where temperature, 
@@ -210,5 +212,5 @@
 %>>>>>>>>>>>>>>>>>>>>>>>>>>>>
 \begin{figure}[!tb]  \begin{center}
-\includegraphics[width=0.90\textwidth]{./TexFiles/Figures/Fig_index_hor.pdf}
+\includegraphics[width=0.90\textwidth]{Fig_index_hor}
 \caption{   \label{Fig_index_hor}    
 Horizontal integer indexing used in the \textsc{Fortran} code. The dashed area indicates 
@@ -260,5 +262,5 @@
 %>>>>>>>>>>>>>>>>>>>>>>>>>>>>
 \begin{figure}[!pt]    \begin{center}
-\includegraphics[width=.90\textwidth]{./TexFiles/Figures/Fig_index_vert.pdf}
+\includegraphics[width=.90\textwidth]{Fig_index_vert}
 \caption{ \label{Fig_index_vert}     
 Vertical integer indexing used in the \textsc{Fortran } code. Note that 
@@ -358,5 +360,5 @@
 %>>>>>>>>>>>>>>>>>>>>>>>>>>>>
 \begin{figure}[!t]     \begin{center}
-\includegraphics[width=0.90\textwidth]{./TexFiles/Figures/Fig_zgr_e3.pdf}
+\includegraphics[width=0.90\textwidth]{Fig_zgr_e3}
 \caption{ \label{Fig_zgr_e3}    
 Comparison of (a) traditional definitions of grid-point position and grid-size in the vertical, 
@@ -467,5 +469,5 @@
 %>>>>>>>>>>>>>>>>>>>>>>>>>>>>
 \begin{figure}[!tb]    \begin{center}
-\includegraphics[width=1.0\textwidth]{./TexFiles/Figures/Fig_z_zps_s_sps.pdf}
+\includegraphics[width=1.0\textwidth]{Fig_z_zps_s_sps}
 \caption{  \label{Fig_z_zps_s_sps}   
 The ocean bottom as seen by the model: 
@@ -578,5 +580,5 @@
 %>>>>>>>>>>>>>>>>>>>>>>>>>>>>
 \begin{figure}[!tb]    \begin{center}
-\includegraphics[width=0.90\textwidth]{./TexFiles/Figures/Fig_zgr.pdf}
+\includegraphics[width=0.90\textwidth]{Fig_zgr}
 \caption{ \label{Fig_zgr}    
 Default vertical mesh for ORCA2: 30 ocean levels (L30). Vertical level functions for 
@@ -802,5 +804,5 @@
 %>>>>>>>>>>>>>>>>>>>>>>>>>>>>
 \begin{figure}[!ht]    \begin{center}
-\includegraphics[width=1.0\textwidth]{./TexFiles/Figures/Fig_sco_function.pdf}
+\includegraphics[width=1.0\textwidth]{Fig_sco_function}
 \caption{  \label{Fig_sco_function}   
 Examples of the stretching function applied to a seamount; from left to right: 
@@ -842,5 +844,5 @@
 %>>>>>>>>>>>>>>>>>>>>>>>>>>>>
 \begin{figure}[!ht]
-   \includegraphics[width=1.0\textwidth]{./TexFiles/Figures/FIG_DOM_compare_coordinates_surface.pdf}
+   \includegraphics[width=1.0\textwidth]{FIG_DOM_compare_coordinates_surface}
         \caption{A comparison of the \citet{Song_Haidvogel_JCP94} $S$-coordinate (solid lines), a 50 level $Z$-coordinate (contoured surfaces) and the \citet{Siddorn_Furner_OM12} $S$-coordinate (dashed lines) in the surface 100m for a idealised bathymetry that goes from 50m to 5500m depth. For clarity every third coordinate surface is shown.}
     \label{fig_compare_coordinates_surface}
@@ -939,2 +941,3 @@
 (typical of the tropical ocean), see \rou{istate\_t\_s} subroutine called from \mdl{istate} module.
 \end{description}
+%\end{document}
Index: /branches/2015/nemo_v3_6_STABLE/DOC/TexFiles/Chapters/Chap_DYN.tex
===================================================================
--- /branches/2015/nemo_v3_6_STABLE/DOC/TexFiles/Chapters/Chap_DYN.tex	(revision 6991)
+++ /branches/2015/nemo_v3_6_STABLE/DOC/TexFiles/Chapters/Chap_DYN.tex	(revision 6992)
@@ -1,2 +1,4 @@
+%\documentclass[NEMO_book]{subfiles}
+%\begin{document}
 % ================================================================
 % Chapter ——— Ocean Dynamics (DYN)
@@ -293,5 +295,5 @@
 %>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>
 \begin{figure}[!ht]    \begin{center}
-\includegraphics[width=0.70\textwidth]{./TexFiles/Figures/Fig_DYN_een_triad.pdf}
+\includegraphics[width=0.70\textwidth]{Fig_DYN_een_triad}
 \caption{ \label{Fig_DYN_een_triad}  
 Triads used in the energy and enstrophy conserving scheme (een) for 
@@ -660,5 +662,5 @@
 $\bullet$ The main hypothesis to compute the ice shelf load is that the ice shelf is in isostatic equilibrium.
  The top pressure is computed integrating a reference density profile (prescribed as density of a water at 34.4 
-PSU and -1.9$\degres C$) from the sea surface to the ice shelf base, which corresponds to the load of the water
+PSU and -1.9$^{\circ}C$) from the sea surface to the ice shelf base, which corresponds to the load of the water
 column in which the ice shelf is floatting. This top pressure is constant over time. A detailed description of 
 this method is described in \citet{Losch2008}.\\
@@ -827,5 +829,5 @@
 %>   >   >   >   >   >   >   >   >   >   >   >   >   >   >   >   >   >   >   >   >   >   >   >   >   >   >   >
 \begin{figure}[!t]    \begin{center}
-\includegraphics[width=0.7\textwidth]{./TexFiles/Figures/Fig_DYN_dynspg_ts.pdf}
+\includegraphics[width=0.7\textwidth]{Fig_DYN_dynspg_ts}
 \caption{  \label{Fig_DYN_dynspg_ts}
 Schematic of the split-explicit time stepping scheme for the external 
@@ -1332,2 +1334,3 @@
 
 % ================================================================
+%\end{document}
Index: /branches/2015/nemo_v3_6_STABLE/DOC/TexFiles/Chapters/Chap_LBC.tex
===================================================================
--- /branches/2015/nemo_v3_6_STABLE/DOC/TexFiles/Chapters/Chap_LBC.tex	(revision 6991)
+++ /branches/2015/nemo_v3_6_STABLE/DOC/TexFiles/Chapters/Chap_LBC.tex	(revision 6992)
@@ -1,2 +1,4 @@
+%\documentclass[NEMO_book]{subfiles}
+%\begin{document}
 % ================================================================
 % Chapter — Lateral Boundary Condition (LBC) 
@@ -53,5 +55,5 @@
 %>>>>>>>>>>>>>>>>>>>>>>>>>>>>
 \begin{figure}[!t]     \begin{center}
-\includegraphics[width=0.90\textwidth]{./TexFiles/Figures/Fig_LBC_uv.pdf}
+\includegraphics[width=0.90\textwidth]{Fig_LBC_uv}
 \caption{  \label{Fig_LBC_uv}
 Lateral boundary (thick line) at T-level. The velocity normal to the boundary is set to zero.}
@@ -76,5 +78,5 @@
 %>>>>>>>>>>>>>>>>>>>>>>>>>>>>
 \begin{figure}[!p] \begin{center}
-\includegraphics[width=0.90\textwidth]{./TexFiles/Figures/Fig_LBC_shlat.pdf}
+\includegraphics[width=0.90\textwidth]{Fig_LBC_shlat}
 \caption{     \label{Fig_LBC_shlat} 
 lateral boundary condition (a) free-slip ($rn\_shlat=0$) ; (b) no-slip ($rn\_shlat=2$) 
@@ -195,5 +197,5 @@
 %>>>>>>>>>>>>>>>>>>>>>>>>>>>>
 \begin{figure}[!t]     \begin{center}
-\includegraphics[width=1.0\textwidth]{./TexFiles/Figures/Fig_LBC_jperio.pdf}
+\includegraphics[width=1.0\textwidth]{Fig_LBC_jperio}
 \caption{    \label{Fig_LBC_jperio}
 setting of (a) east-west cyclic  (b) symmetric across the equator boundary conditions.}
@@ -214,5 +216,5 @@
 %>>>>>>>>>>>>>>>>>>>>>>>>>>>>
 \begin{figure}[!t]    \begin{center}
-\includegraphics[width=0.90\textwidth]{./TexFiles/Figures/Fig_North_Fold_T.pdf}
+\includegraphics[width=0.90\textwidth]{Fig_North_Fold_T}
 \caption{    \label{Fig_North_Fold_T} 
 North fold boundary with a $T$-point pivot and cyclic east-west boundary condition 
@@ -277,5 +279,5 @@
 %>>>>>>>>>>>>>>>>>>>>>>>>>>>>
 \begin{figure}[!t]    \begin{center}
-\includegraphics[width=0.90\textwidth]{./TexFiles/Figures/Fig_mpp.pdf}
+\includegraphics[width=0.90\textwidth]{Fig_mpp}
 \caption{   \label{Fig_mpp} 
 Positioning of a sub-domain when massively parallel processing is used. }
@@ -351,5 +353,5 @@
 %>>>>>>>>>>>>>>>>>>>>>>>>>>>>
 \begin{figure}[!ht]     \begin{center}
-\includegraphics[width=0.90\textwidth]{./TexFiles/Figures/Fig_mppini2.pdf}
+\includegraphics[width=0.90\textwidth]{Fig_mppini2}
 \caption {    \label{Fig_mppini2}
 Example of Atlantic domain defined for the CLIPPER projet. Initial grid is 
@@ -582,5 +584,5 @@
 %>>>>>>>>>>>>>>>>>>>>>>>>>>>>
 \begin{figure}[!t]      \begin{center}
-\includegraphics[width=1.0\textwidth]{./TexFiles/Figures/Fig_LBC_bdy_geom.pdf}
+\includegraphics[width=1.0\textwidth]{Fig_LBC_bdy_geom}
 \caption {      \label{Fig_LBC_bdy_geom}
 Example of geometry of unstructured open boundary}
@@ -623,5 +625,5 @@
 %>>>>>>>>>>>>>>>>>>>>>>>>>>>>
 \begin{figure}[!t]     \begin{center}
-\includegraphics[width=1.0\textwidth]{./TexFiles/Figures/Fig_LBC_nc_header.pdf}
+\includegraphics[width=1.0\textwidth]{Fig_LBC_nc_header}
 \caption {     \label{Fig_LBC_nc_header} 
 Example of the header for a coordinates.bdy.nc file}
@@ -660,2 +662,3 @@
 
 
+%\end{document}
Index: /branches/2015/nemo_v3_6_STABLE/DOC/TexFiles/Chapters/Chap_LDF.tex
===================================================================
--- /branches/2015/nemo_v3_6_STABLE/DOC/TexFiles/Chapters/Chap_LDF.tex	(revision 6991)
+++ /branches/2015/nemo_v3_6_STABLE/DOC/TexFiles/Chapters/Chap_LDF.tex	(revision 6992)
@@ -1,2 +1,4 @@
+%\documentclass[NEMO_book]{subfiles}
+%\begin{document}
 
 % ================================================================
@@ -105,5 +107,5 @@
 Other formulations can be introduced by the user for a given configuration. 
 For example, in the ORCA2 global ocean model (see Configurations), the laplacian 
-viscosity operator uses \np{rn\_ahm\_0\_lap}~= 4.10$^4$ m$^2$/s poleward of 20$^{\circ}$ 
+viscosity operator uses \np{rn\_ahm\_0\_lap}~= 4.10$^4$ m$^2$/s poleward of 20\deg 
 north and south and decreases linearly to \np{rn\_aht\_0}~= 2.10$^3$ m$^2$/s 
 at the equator \citep{Madec_al_JPO96, Delecluse_Madec_Bk00}. This modification 
@@ -231,5 +233,5 @@
 values are $0$). However, the technique used to compute the isopycnal 
 slopes is intended to get rid of such a background diffusion, since it introduces 
-spurious diapycnal diffusion (see {\S\ref{LDF_slp}).
+spurious diapycnal diffusion (see \S\ref{LDF_slp}).
 
 (4) when an eddy induced advection term is used (\key{traldf\_eiv}), $A^{eiv}$, 
@@ -444,5 +446,5 @@
 %>>>>>>>>>>>>>>>>>>>>>>>>>>>>
 \begin{figure}[!ht]      \begin{center}
-\includegraphics[width=0.70\textwidth]{./TexFiles/Figures/Fig_LDF_ZDF1.pdf}
+\includegraphics[width=0.70\textwidth]{Fig_LDF_ZDF1}
 \caption {    \label{Fig_LDF_ZDF1}
 averaging procedure for isopycnal slope computation.}
@@ -472,5 +474,5 @@
 %>>>>>>>>>>>>>>>>>>>>>>>>>>>>
 \begin{figure}[!ht]     \begin{center}
-\includegraphics[width=0.70\textwidth]{./TexFiles/Figures/Fig_eiv_slp.pdf}
+\includegraphics[width=0.70\textwidth]{Fig_eiv_slp}
 \caption {     \label{Fig_eiv_slp}
 Vertical profile of the slope used for lateral mixing in the mixed layer : 
@@ -514,5 +516,5 @@
 diffusion along model level surfaces, i.e. using the shear computed along 
 the model levels and with no additional friction at the ocean bottom (see 
-{\S\ref{LBC_coast}).
+\S\ref{LBC_coast}).
 
 
@@ -555,2 +557,3 @@
 
 
+%\end{document}
Index: /branches/2015/nemo_v3_6_STABLE/DOC/TexFiles/Chapters/Chap_MISC.tex
===================================================================
--- /branches/2015/nemo_v3_6_STABLE/DOC/TexFiles/Chapters/Chap_MISC.tex	(revision 6991)
+++ /branches/2015/nemo_v3_6_STABLE/DOC/TexFiles/Chapters/Chap_MISC.tex	(revision 6992)
@@ -1,2 +1,4 @@
+%\documentclass[NEMO_book]{subfiles}
+%\begin{document}
 % ================================================================
 % Chapter � Miscellaneous Topics
@@ -60,8 +62,8 @@
 %>>>>>>>>>>>>>>>>>>>>>>>>>>>>
 \begin{figure}[!tbp] 	 \begin{center}
-\includegraphics[width=0.80\textwidth]{./TexFiles/Figures/Fig_Gibraltar.pdf}
-\includegraphics[width=0.80\textwidth]{./TexFiles/Figures/Fig_Gibraltar2.pdf}
+\includegraphics[width=0.80\textwidth]{Fig_Gibraltar}
+\includegraphics[width=0.80\textwidth]{Fig_Gibraltar2}
 \caption{	\label{Fig_MISC_strait_hand} 
-Example of the Gibraltar strait defined in a $1\deg \times 1\deg$ mesh. 
+Example of the Gibraltar strait defined in a $1^{\circ} \times 1^{\circ}$ mesh. 
 \textit{Top}: using partially open cells. The meridional scale factor at $v$-point 
 is reduced on both sides of the strait to account for the real width of the strait 
@@ -194,5 +196,5 @@
 %>>>>>>>>>>>>>>>>>>>>>>>>>>>>
 \begin{figure}[!ht] 	  \begin{center}
-\includegraphics[width=0.90\textwidth]{./TexFiles/Figures/Fig_LBC_zoom.pdf}
+\includegraphics[width=0.90\textwidth]{Fig_LBC_zoom}
 \caption{	\label{Fig_LBC_zoom}
 Position of a model domain compared to the data input domain when the zoom functionality is used.}
@@ -632,2 +634,3 @@
 
 
+%\end{document}
Index: /branches/2015/nemo_v3_6_STABLE/DOC/TexFiles/Chapters/Chap_Model_Basics.tex
===================================================================
--- /branches/2015/nemo_v3_6_STABLE/DOC/TexFiles/Chapters/Chap_Model_Basics.tex	(revision 6991)
+++ /branches/2015/nemo_v3_6_STABLE/DOC/TexFiles/Chapters/Chap_Model_Basics.tex	(revision 6992)
@@ -1,2 +1,4 @@
+%\documentclass[NEMO_book]{subfiles}
+%\begin{document}
 % ================================================================
 % Chapter 1 Ñ Model Basics
@@ -114,5 +116,5 @@
 %>>>>>>>>>>>>>>>>>>>>>>>>>>>>
 \begin{figure}[!ht]	 \begin{center}
-\includegraphics[width=0.90\textwidth]{./TexFiles/Figures/Fig_I_ocean_bc.pdf}
+\includegraphics[width=0.90\textwidth]{Fig_I_ocean_bc}
 \caption{	 \label{Fig_ocean_bc} 
 The ocean is bounded by two surfaces, $z=-H(i,j)$ and $z=\eta(i,j,t)$, where $H$ 
@@ -312,5 +314,5 @@
 %>>>>>>>>>>>>>>>>>>>>>>>>>>>>
 \begin{figure}[!tb] 	 \begin{center}
-\includegraphics[width=0.60\textwidth]{./TexFiles/Figures/Fig_I_earth_referential.pdf}
+\includegraphics[width=0.60\textwidth]{Fig_I_earth_referential}
 \caption{	\label{Fig_referential} 
 the geographical coordinate system $(\lambda,\varphi,z)$ and the curvilinear 
@@ -811,5 +813,5 @@
 %>>>>>>>>>>>>>>>>>>>>>>>>>>>>
 \begin{figure}[!b] 	 \begin{center}
-\includegraphics[width=1.0\textwidth]{./TexFiles/Figures/Fig_z_zstar.pdf}
+\includegraphics[width=1.0\textwidth]{Fig_z_zstar}
 \caption{	\label{Fig_z_zstar} 
 (a) $z$-coordinate in linear free-surface case ; 
@@ -1280,2 +1282,3 @@
 \end{equation}
 
+%\end{document}
Index: /branches/2015/nemo_v3_6_STABLE/DOC/TexFiles/Chapters/Chap_Model_Basics_zstar.tex
===================================================================
--- /branches/2015/nemo_v3_6_STABLE/DOC/TexFiles/Chapters/Chap_Model_Basics_zstar.tex	(revision 6991)
+++ /branches/2015/nemo_v3_6_STABLE/DOC/TexFiles/Chapters/Chap_Model_Basics_zstar.tex	(revision 6992)
@@ -1,2 +1,4 @@
+%\documentclass[NEMO_book]{subfiles}
+%\begin{document}
 % ================================================================
 % Chapter 1 ——— Model Basics
@@ -121,5 +123,5 @@
 %>   >   >   >   >   >   >   >   >   >   >   >   >   >   >   >   >   >   >   >   >   >   >   >   >   >   >   >
 \begin{figure}[!t] 	\begin{center}
-\includegraphics[width=0.90\textwidth]{./Figures/Fig_DYN_dynspg_ts.pdf}
+\includegraphics[width=0.90\textwidth]{Fig_DYN_dynspg_ts}
 \caption{	 \label{Fig_DYN_dynspg_ts}
 Schematic of the split-explicit time stepping scheme for the barotropic and baroclinic modes, 
@@ -256,2 +258,3 @@
 
 
+%\end{document}
Index: /branches/2015/nemo_v3_6_STABLE/DOC/TexFiles/Chapters/Chap_OBS.tex
===================================================================
--- /branches/2015/nemo_v3_6_STABLE/DOC/TexFiles/Chapters/Chap_OBS.tex	(revision 6991)
+++ /branches/2015/nemo_v3_6_STABLE/DOC/TexFiles/Chapters/Chap_OBS.tex	(revision 6992)
@@ -1,2 +1,4 @@
+%\documentclass[NEMO_book]{subfiles}
+%\begin{document}
 % ================================================================
 % Chapter observation operator (OBS)
@@ -732,5 +734,5 @@
 %>>>>>>>>>>>>>>>>>>>>>>>>>>>>
 \begin{figure}      \begin{center}
-\includegraphics[width=10cm,height=12cm,angle=-90.]{./TexFiles/Figures/Fig_ASM_obsdist_local}
+\includegraphics[width=10cm,height=12cm,angle=-90.]{Fig_ASM_obsdist_local}
 \caption{      \label{fig:obslocal}
 Example of the distribution of observations with the geographical distribution of observational data.} 
@@ -759,5 +761,5 @@
 %>>>>>>>>>>>>>>>>>>>>>>>>>>>>
 \begin{figure}     \begin{center}
-\includegraphics[width=10cm,height=12cm,angle=-90.]{./TexFiles/Figures/Fig_ASM_obsdist_global}
+\includegraphics[width=10cm,height=12cm,angle=-90.]{Fig_ASM_obsdist_global}
 \caption{      \label{fig:obsglobal}
 Example of the distribution of observations with the round-robin distribution of observational data.}
@@ -1376,6 +1378,6 @@
 %>>>>>>>>>>>>>>>>>>>>>>>>>>>>
 \begin{figure}     \begin{center}
-%\includegraphics[width=10cm,height=12cm,angle=-90.]{./TexFiles/Figures/Fig_OBS_dataplot_main}
-\includegraphics[width=9cm,angle=-90.]{./TexFiles/Figures/Fig_OBS_dataplot_main}
+%\includegraphics[width=10cm,height=12cm,angle=-90.]{Fig_OBS_dataplot_main}
+\includegraphics[width=9cm,angle=-90.]{Fig_OBS_dataplot_main}
 \caption{      \label{fig:obsdataplotmain}
 Main window of dataplot.}
@@ -1388,6 +1390,6 @@
 %>>>>>>>>>>>>>>>>>>>>>>>>>>>>
 \begin{figure}     \begin{center}
-%\includegraphics[width=10cm,height=12cm,angle=-90.]{./TexFiles/Figures/Fig_OBS_dataplot_prof}
-\includegraphics[width=7cm,angle=-90.]{./TexFiles/Figures/Fig_OBS_dataplot_prof}
+%\includegraphics[width=10cm,height=12cm,angle=-90.]{Fig_OBS_dataplot_prof}
+\includegraphics[width=7cm,angle=-90.]{Fig_OBS_dataplot_prof}
 \caption{      \label{fig:obsdataplotprofile}
 Profile plot from dataplot produced by right clicking on a point in the main window.}
@@ -1398,2 +1400,3 @@
 
 
+%\end{document}
Index: /branches/2015/nemo_v3_6_STABLE/DOC/TexFiles/Chapters/Chap_SBC.tex
===================================================================
--- /branches/2015/nemo_v3_6_STABLE/DOC/TexFiles/Chapters/Chap_SBC.tex	(revision 6991)
+++ /branches/2015/nemo_v3_6_STABLE/DOC/TexFiles/Chapters/Chap_SBC.tex	(revision 6992)
@@ -1,2 +1,4 @@
+%\documentclass[NEMO_book]{subfiles}
+%\begin{document}
 % ================================================================
 % Chapter —— Surface Boundary Condition (SBC, ISF, ICB) 
@@ -952,5 +954,5 @@
 %>>>>>>>>>>>>>>>>>>>>>>>>>>>>
 \begin{figure}[!h]    \begin{center}
-\includegraphics[width=0.8\textwidth]{./TexFiles/Figures/Fig_SBC_isf.pdf}
+\includegraphics[width=0.8\textwidth]{Fig_SBC_isf}
 \caption{ \label{Fig_SBC_isf}
 Schematic for all the options available trough \np{nn\_isf}.}
@@ -1129,5 +1131,5 @@
 %>>>>>>>>>>>>>>>>>>>>>>>>>>>>
 \begin{figure}[!t]    \begin{center}
-\includegraphics[width=0.8\textwidth]{./TexFiles/Figures/Fig_SBC_diurnal.pdf}
+\includegraphics[width=0.8\textwidth]{Fig_SBC_diurnal}
 \caption{ \label{Fig_SBC_diurnal}    
 Example of recontruction of the diurnal cycle variation of short wave flux  
@@ -1162,5 +1164,5 @@
 %>>>>>>>>>>>>>>>>>>>>>>>>>>>>
 \begin{figure}[!t]  \begin{center}
-\includegraphics[width=0.7\textwidth]{./TexFiles/Figures/Fig_SBC_dcy.pdf}
+\includegraphics[width=0.7\textwidth]{Fig_SBC_dcy}
 \caption{ \label{Fig_SBC_dcy}   
 Example of recontruction of the diurnal cycle variation of short wave flux  
@@ -1357,2 +1359,3 @@
 
 
+%\end{document}
Index: /branches/2015/nemo_v3_6_STABLE/DOC/TexFiles/Chapters/Chap_STO.tex
===================================================================
--- /branches/2015/nemo_v3_6_STABLE/DOC/TexFiles/Chapters/Chap_STO.tex	(revision 6991)
+++ /branches/2015/nemo_v3_6_STABLE/DOC/TexFiles/Chapters/Chap_STO.tex	(revision 6992)
@@ -1,2 +1,4 @@
+%\documentclass[NEMO_book]{subfiles}
+%\begin{document}
 % ================================================================
 % Chapter stochastic parametrization of EOS (STO)
@@ -157,2 +159,3 @@
 
 
+%\end{document}
Index: /branches/2015/nemo_v3_6_STABLE/DOC/TexFiles/Chapters/Chap_STP.tex
===================================================================
--- /branches/2015/nemo_v3_6_STABLE/DOC/TexFiles/Chapters/Chap_STP.tex	(revision 6991)
+++ /branches/2015/nemo_v3_6_STABLE/DOC/TexFiles/Chapters/Chap_STP.tex	(revision 6992)
@@ -1,2 +1,4 @@
+%\documentclass[NEMO_book]{subfiles}
+%\begin{document}
 
 % ================================================================
@@ -196,5 +198,5 @@
 %>>>>>>>>>>>>>>>>>>>>>>>>>>>>
 \begin{figure}[!t] 	  \begin{center}
-\includegraphics[width=0.7\textwidth]{./TexFiles/Figures/Fig_TimeStepping_flowchart.pdf}
+\includegraphics[width=0.7\textwidth]{Fig_TimeStepping_flowchart}
 \caption{ 	\label{Fig_TimeStep_flowchart}
 Sketch of the leapfrog time stepping sequence in \NEMO from \citet{Leclair_Madec_OM09}. 
@@ -288,5 +290,5 @@
 %>>>>>>>>>>>>>>>>>>>>>>>>>>>>
 \begin{figure}[!t] 	  \begin{center}
-\includegraphics[width=0.90\textwidth]{./TexFiles/Figures/Fig_MLF_forcing.pdf}
+\includegraphics[width=0.90\textwidth]{Fig_MLF_forcing}
 \caption{ 	\label{Fig_MLF_forcing}
 Illustration of forcing integration methods. 
@@ -424,2 +426,3 @@
 }
 %%
+%\end{document}
Index: /branches/2015/nemo_v3_6_STABLE/DOC/TexFiles/Chapters/Chap_TRA.tex
===================================================================
--- /branches/2015/nemo_v3_6_STABLE/DOC/TexFiles/Chapters/Chap_TRA.tex	(revision 6991)
+++ /branches/2015/nemo_v3_6_STABLE/DOC/TexFiles/Chapters/Chap_TRA.tex	(revision 6992)
@@ -1,2 +1,4 @@
+%\documentclass[NEMO_book]{subfiles}
+%\begin{document}
 % ================================================================
 % Chapter 1 ——— Ocean Tracers (TRA)
@@ -89,5 +91,5 @@
 %>>>>>>>>>>>>>>>>>>>>>>>>>>>>
 \begin{figure}[!t] 	 \begin{center}
-\includegraphics[width=0.9\textwidth]{./TexFiles/Figures/Fig_adv_scheme.pdf}
+\includegraphics[width=0.9\textwidth]{Fig_adv_scheme}
 \caption{	\label{Fig_adv_scheme} 
 Schematic representation of some ways used to evaluate the tracer value 
@@ -778,5 +780,5 @@
 %>>>>>>>>>>>>>>>>>>>>>>>>>>>>
 \begin{figure}[!t] 	  \begin{center}
-\includegraphics[width=1.0\textwidth]{./TexFiles/Figures/Fig_TRA_Irradiance.pdf}
+\includegraphics[width=1.0\textwidth]{Fig_TRA_Irradiance}
 \caption{ 	 \label{Fig_traqsr_irradiance}
 Penetration profile of the downward solar irradiance calculated by four models. 
@@ -799,5 +801,5 @@
 %>>>>>>>>>>>>>>>>>>>>>>>>>>>>
 \begin{figure}[!t] 	  \begin{center}
-\includegraphics[width=1.0\textwidth]{./TexFiles/Figures/Fig_TRA_geoth.pdf}
+\includegraphics[width=1.0\textwidth]{Fig_TRA_geoth}
 \caption{ 	\label{Fig_geothermal}
 Geothermal Heat flux (in $mW.m^{-2}$) used by \cite{Emile-Geay_Madec_OS09}.
@@ -909,5 +911,5 @@
 %>>>>>>>>>>>>>>>>>>>>>>>>>>>>
 \begin{figure}[!t] 	\begin{center}
-\includegraphics[width=0.7\textwidth]{./TexFiles/Figures/Fig_BBL_adv.pdf}
+\includegraphics[width=0.7\textwidth]{Fig_BBL_adv}
 \caption{ 	\label{Fig_bbl}  
 Advective/diffusive Bottom Boundary Layer. The BBL parameterisation is 
@@ -1067,5 +1069,5 @@
 The restoration coefficient can be set to zero in equatorial regions by specifying a positive value of \np{nn\_hdmp}. 
 Equatorward of this latitude the restoration coefficient will be zero with a smooth transition to 
-the full values of a 10$^{\circ}$ latitud band. 
+the full values of a 10\deg latitud band. 
 This is often used because of the short adjustment time scale in the equatorial region 
 \citep{Reverdin1991, Fujio1991, Marti_PhD92}. The time scale associated with the damping depends on the depth as a 
@@ -1167,8 +1169,8 @@
 rational function approximation for hydrographic data analysis  \citep{TEOS10}. 
 A key point is that conservative state variables are used: 
-Absolute Salinity (unit: g/kg, notation: $S_A$) and Conservative Temperature (unit: $\degres C$, notation: $\Theta$).
+Absolute Salinity (unit: g/kg, notation: $S_A$) and Conservative Temperature (unit: \degC, notation: $\Theta$).
 The pressure in decibars is approximated by the depth in meters. 
 With TEOS10, the specific heat capacity of sea water, $C_p$, is a constant. It is set to 
-$C_p=3991.86795711963~J\,Kg^{-1}\,\degres K^{-1}$, according to \citet{TEOS10}.
+$C_p=3991.86795711963~J\,Kg^{-1}\,^{\circ}K^{-1}$, according to \citet{TEOS10}.
 
 Choosing polyTEOS10-bsq implies that the state variables used by the model are 
@@ -1183,5 +1185,5 @@
 to accurately fit EOS80 (Roquet, personal comm.). The state variables used in both the EOS80 
 and the ocean model are: 
-the Practical Salinity ((unit: psu, notation: $S_p$)) and Potential Temperature (unit: $\degres C$, notation: $\theta$).
+the Practical Salinity ((unit: psu, notation: $S_p$)) and Potential Temperature (unit: $^{\circ}C$, notation: $\theta$).
 The pressure in decibars is approximated by the depth in meters.  
 With thsi EOS, the specific heat capacity of sea water, $C_p$, is a function of temperature, 
@@ -1305,5 +1307,5 @@
 %>>>>>>>>>>>>>>>>>>>>>>>>>>>>
 \begin{figure}[!p] 	 \begin{center}
-\includegraphics[width=0.9\textwidth]{./TexFiles/Figures/Partial_step_scheme.pdf}
+\includegraphics[width=0.9\textwidth]{Partial_step_scheme}
 \caption{ 	\label{Fig_Partial_step_scheme} 
 Discretisation of the horizontal difference and average of tracers in the $z$-partial 
@@ -1384,2 +1386,3 @@
  with $\widetilde {Z}_{T_k}$ the depth of the point $\widetilde {T}_{k}$ in case of $z^*$ coordinates 
 (this term = 0 in z-coordinates)
+%\end{document}
Index: /branches/2015/nemo_v3_6_STABLE/DOC/TexFiles/Chapters/Chap_ZDF.tex
===================================================================
--- /branches/2015/nemo_v3_6_STABLE/DOC/TexFiles/Chapters/Chap_ZDF.tex	(revision 6991)
+++ /branches/2015/nemo_v3_6_STABLE/DOC/TexFiles/Chapters/Chap_ZDF.tex	(revision 6992)
@@ -1,2 +1,4 @@
+%\documentclass[NEMO_book]{subfiles}
+%\begin{document}
 % ================================================================
 % Chapter  Vertical Ocean Physics (ZDF)
@@ -233,5 +235,5 @@
 %>>>>>>>>>>>>>>>>>>>>>>>>>>>>
 \begin{figure}[!t] \begin{center}
-\includegraphics[width=1.00\textwidth]{./TexFiles/Figures/Fig_mixing_length.pdf}
+\includegraphics[width=1.00\textwidth]{Fig_mixing_length}
 \caption{ \label{Fig_mixing_length} 
 Illustration of the mixing length computation. }
@@ -407,5 +409,5 @@
 %>>>>>>>>>>>>>>>>>>>>>>>>>>>>
 \begin{figure}[!t]   \begin{center}
-\includegraphics[width=1.00\textwidth]{./TexFiles/Figures/Fig_ZDF_TKE_time_scheme.pdf}
+\includegraphics[width=1.00\textwidth]{Fig_ZDF_TKE_time_scheme}
 \caption{ \label{Fig_TKE_time_scheme} 
 Illustration of the TKE time integration and its links to the momentum and tracer time integration. }
@@ -586,5 +588,5 @@
 value near physical boundaries (logarithmic boundary layer law). $C_{\mu}$ and $C_{\mu'}$ 
 are calculated from stability function proposed by \citet{Galperin_al_JAS88}, or by \citet{Kantha_Clayson_1994} 
-or one of the two functions suggested by \citet{Canuto_2001}  (\np{nn\_stab\_func} = 0, 1, 2 or 3, resp.}). 
+or one of the two functions suggested by \citet{Canuto_2001}  (\np{nn\_stab\_func} = 0, 1, 2 or 3, resp.). 
 The value of $C_{0\mu}$ depends of the choice of the stability function.
 
@@ -658,5 +660,5 @@
 %>>>>>>>>>>>>>>>>>>>>>>>>>>>>
 \begin{figure}[!htb]  	\begin{center}
-\includegraphics[width=0.90\textwidth]{./TexFiles/Figures/Fig_npc.pdf}
+\includegraphics[width=0.90\textwidth]{Fig_npc}
 \caption{  \label{Fig_npc} 
 Example of an unstable density profile treated by the non penetrative 
@@ -814,5 +816,5 @@
 %>>>>>>>>>>>>>>>>>>>>>>>>>>>>
 \begin{figure}[!t]   \begin{center}
-\includegraphics[width=0.99\textwidth]{./TexFiles/Figures/Fig_zdfddm.pdf}
+\includegraphics[width=0.99\textwidth]{Fig_zdfddm}
 \caption{  \label{Fig_zdfddm}
 From \citet{Merryfield1999} : (a) Diapycnal diffusivities $A_f^{vT}$ 
@@ -1143,5 +1145,5 @@
 baroclinic and barotropic components which is appropriate when using either the
 explicit or filtered surface pressure gradient algorithms (\key{dynspg\_exp} or 
-{\key{dynspg\_flt}). Extra attention is required, however, when using 
+\key{dynspg\_flt}). Extra attention is required, however, when using 
 split-explicit time stepping (\key{dynspg\_ts}). In this case the free surface 
 equation is solved with a small time step \np{rn\_rdt}/\np{nn\_baro}, while the three 
@@ -1258,5 +1260,5 @@
 %>>>>>>>>>>>>>>>>>>>>>>>>>>>>
 \begin{figure}[!t] 	\begin{center}
-\includegraphics[width=0.90\textwidth]{./TexFiles/Figures/Fig_ZDF_M2_K1_tmx.pdf}
+\includegraphics[width=0.90\textwidth]{Fig_ZDF_M2_K1_tmx}
 \caption{  \label{Fig_ZDF_M2_K1_tmx} 
 (a) M2 and (b) K1 internal wave drag energy from \citet{Carrere_Lyard_GRL03} ($W/m^2$). }
@@ -1369,2 +1371,3 @@
 
 
+%\end{document}
Index: /branches/2015/nemo_v3_6_STABLE/DOC/TexFiles/Chapters/Introduction.tex
===================================================================
--- /branches/2015/nemo_v3_6_STABLE/DOC/TexFiles/Chapters/Introduction.tex	(revision 6991)
+++ /branches/2015/nemo_v3_6_STABLE/DOC/TexFiles/Chapters/Introduction.tex	(revision 6992)
@@ -1,2 +1,4 @@
+%\documentclass[NEMO_book]{subfiles}
+%\begin{document}
 
 % ================================================================
@@ -290,2 +292,3 @@
 
 
+%\end{document}
Index: anches/2015/nemo_v3_6_STABLE/DOC/TexFiles/NEMO.ist
===================================================================
--- /branches/2015/nemo_v3_6_STABLE/DOC/TexFiles/NEMO.ist	(revision 6991)
+++ 	(revision )
@@ -1,3 +1,0 @@
-delim_0 "\\dotfill"
-delim_1 "\\dotfill"
-delim_2 "\\dotfill"
Index: /branches/2015/nemo_v3_6_STABLE/DOC/TexFiles/Styles/NEMO.ist
===================================================================
--- /branches/2015/nemo_v3_6_STABLE/DOC/TexFiles/Styles/NEMO.ist	(revision 6992)
+++ /branches/2015/nemo_v3_6_STABLE/DOC/TexFiles/Styles/NEMO.ist	(revision 6992)
@@ -0,0 +1,3 @@
+delim_0 "\\dotfill"
+delim_1 "\\dotfill"
+delim_2 "\\dotfill"
Index: /branches/2015/nemo_v3_6_STABLE/DOC/TexFiles/Styles/ametsoc.bst
===================================================================
--- /branches/2015/nemo_v3_6_STABLE/DOC/TexFiles/Styles/ametsoc.bst	(revision 6992)
+++ /branches/2015/nemo_v3_6_STABLE/DOC/TexFiles/Styles/ametsoc.bst	(revision 6992)
@@ -0,0 +1,1662 @@
+%%
+%% This is file `ametsoc7.bst',
+%% generated with the docstrip utility.
+%%
+%% The original source files were:
+%%
+%% merlin.mbs  (with options: `ay,nat,nm-rev1,ed-rev,jnrlst,nmdash,nmd-3,dt-beg,yr-com,yrp-col,thtit-a,vol-2bf,vnum-sp,volp-com,pgsep-s,num-xser,numser,ser-vol,bkpg-x,pg-bk,pre-edn,agu-doi,doi,edparc,bkedcap,edby,edbyy,blk-tit,in-x,pp,ed,abr,ednx,ord,jabr,eprint,url,url-nt,em-it,nfss,')
+%% ----------------------------------------
+%% *** Bibliography style file for ALL AMS Journals...version 1.0  ***
+%% *** Brian Papa - American Meteorological Society ***
+%% 
+%% Copyright 1994-2004 Patrick W Daly
+ % ===============================================================
+ % IMPORTANT NOTICE:
+ % This bibliographic style (bst) file has been generated from one or
+ % more master bibliographic style (mbs) files, listed above.
+ %
+ % This generated file can be redistributed and/or modified under the terms
+ % of the LaTeX Project Public License Distributed from CTAN
+ % archives in directory macros/latex/base/lppl.txt; either
+ % version 1 of the License, or any later version.
+ % ===============================================================
+ % Name and version information of the main mbs file:
+ % \ProvidesFile{merlin.mbs}[2004/02/09 4.13 (PWD, AO, DPC)]
+ %   For use with BibTeX version 0.99a or later
+ %-------------------------------------------------------------------
+ % This bibliography style file is intended for texts in ENGLISH
+ % This is an author-year citation style bibliography. As such, it is
+ % non-standard LaTeX, and requires a special package file to function properly.
+ % Such a package is    natbib.sty   by Patrick W. Daly
+ % The form of the \bibitem entries is
+ %   \bibitem[Jones et al.(1990)]{key}...
+ %   \bibitem[Jones et al.(1990)Jones, Baker, and Smith]{key}...
+ % The essential feature is that the label (the part in brackets) consists
+ % of the author names, as they should appear in the citation, with the year
+ % in parentheses following. There must be no space before the opening
+ % parenthesis!
+ % With natbib v5.3, a full list of authors may also follow the year.
+ % In natbib.sty, it is possible to define the type of enclosures that is
+ % really wanted (brackets or parentheses), but in either case, there must
+ % be parentheses in the label.
+ % The \cite command functions as follows:
+ %   \citet{key} ==>>                Jones et al. (1990)
+ %   \citet*{key} ==>>               Jones, Baker, and Smith (1990)
+ %   \citep{key} ==>>                (Jones et al., 1990)
+ %   \citep*{key} ==>>               (Jones, Baker, and Smith, 1990)
+ %   \citep[chap. 2]{key} ==>>       (Jones et al., 1990, chap. 2)
+ %   \citep[e.g.][]{key} ==>>        (e.g. Jones et al., 1990)
+ %   \citep[e.g.][p. 32]{key} ==>>   (e.g. Jones et al., p. 32)
+ %   \citeauthor{key} ==>>           Jones et al.
+ %   \citeauthor*{key} ==>>          Jones, Baker, and Smith
+ %   \citeyear{key} ==>>             1990
+ %---------------------------------------------------------------------
+
+ENTRY
+  { address
+    archive
+    author
+    booktitle
+    chapter
+    doi
+    edition
+    editor
+    eid
+    eprint
+    howpublished
+    department
+    institution
+    journal
+    key
+    month
+    note
+    number
+    organization
+    pages
+    publisher
+    school
+    series
+    title
+    type
+    url
+    volume
+    year
+  }
+  {}
+  { label extra.label sort.label short.list }
+INTEGERS { output.state before.all mid.sentence after.sentence after.block }
+FUNCTION {init.state.consts}
+{ #0 'before.all :=
+  #1 'mid.sentence :=
+  #2 'after.sentence :=
+  #3 'after.block :=
+}
+STRINGS { s t}
+FUNCTION {output.nonnull}
+{ 's :=
+  output.state mid.sentence =
+    { ", " * write$ }
+    { output.state after.block =
+        { add.period$ write$
+          newline$
+          "\newblock " write$
+        }
+        { output.state before.all =
+            'write$
+            { add.period$ " " * write$ }
+          if$
+        }
+      if$
+      mid.sentence 'output.state :=
+    }
+  if$
+  s
+}
+FUNCTION {output}
+{ duplicate$ empty$
+    'pop$
+    'output.nonnull
+  if$
+}
+FUNCTION {output.check}
+{ 't :=
+  duplicate$ empty$
+    { pop$ "empty " t * " in " * cite$ * warning$ }
+    'output.nonnull
+  if$
+}
+FUNCTION {fin.entry}
+{ add.period$
+  write$
+  newline$
+}
+
+FUNCTION {new.block}
+{ output.state before.all =
+    'skip$
+    { after.block 'output.state := }
+  if$
+}
+FUNCTION {new.sentence}
+{ output.state after.block =
+    'skip$
+    { output.state before.all =
+        'skip$
+        { after.sentence 'output.state := }
+      if$
+    }
+  if$
+}
+FUNCTION {add.blank}
+{  " " * before.all 'output.state :=
+}
+
+FUNCTION {date.block}
+{
+  ":" *
+  add.blank
+}
+
+FUNCTION {not}
+{   { #0 }
+    { #1 }
+  if$
+}
+FUNCTION {and}
+{   'skip$
+    { pop$ #0 }
+  if$
+}
+FUNCTION {or}
+{   { pop$ #1 }
+    'skip$
+  if$
+}
+FUNCTION {new.block.checkb}
+{ empty$
+  swap$ empty$
+  and
+    'skip$
+    'new.block
+  if$
+}
+FUNCTION {field.or.null}
+{ duplicate$ empty$
+    { pop$ "" }
+    'skip$
+  if$
+}
+FUNCTION {emphasize}
+{ duplicate$ empty$
+    { pop$ "" }
+    { "\textit{" swap$ * "}" * }
+  if$
+}
+FUNCTION {bolden}
+{ duplicate$ empty$
+    { pop$ "" }
+    { "\textbf{" swap$ * "}" * }
+  if$
+}
+FUNCTION {tie.or.space.prefix}
+{ duplicate$ text.length$ #3 <
+    { "~" }
+    { " " }
+  if$
+  swap$
+}
+
+FUNCTION {capitalize}
+{ "u" change.case$ "t" change.case$ }
+
+FUNCTION {space.word}
+{ " " swap$ * " " * }
+ % Here are the language-specific definitions for explicit words.
+ % Each function has a name bbl.xxx where xxx is the English word.
+ % The language selected here is ENGLISH
+FUNCTION {bbl.and}
+{ "and"}
+
+FUNCTION {bbl.etal}
+{ "et~al." }
+
+FUNCTION {bbl.editors}
+{ "Eds." }
+
+FUNCTION {bbl.editor}
+{ "Ed." }
+
+FUNCTION {bbl.edby}
+{ "edited by" }
+
+FUNCTION {bbl.edition}
+{ "ed." }
+
+FUNCTION {bbl.volume}
+{ "Vol." }
+
+FUNCTION {bbl.of}
+{ "of" }
+
+FUNCTION {bbl.number}
+{ "No." }
+
+FUNCTION {bbl.nr}
+{ "No." }
+
+FUNCTION {bbl.in}
+{ "in" }
+
+FUNCTION {bbl.pages}
+{ "pp." }
+
+FUNCTION {bbl.page}
+{ "p." }
+
+FUNCTION {bbl.chapter}
+{ "chap." }
+
+FUNCTION {bbl.techrep}
+{ "Tech. Rep." }
+
+FUNCTION {bbl.mthesis}
+{ "Master's thesis" }
+
+FUNCTION {bbl.phdthesis}
+{ "Ph.D. thesis" }
+
+FUNCTION {bbl.first}
+{ "1st" }
+
+FUNCTION {bbl.second}
+{ "2d" }
+
+FUNCTION {bbl.third}
+{ "3d" }
+
+FUNCTION {bbl.fourth}
+{ "4th" }
+
+FUNCTION {bbl.fifth}
+{ "5th" }
+
+FUNCTION {bbl.st}
+{ "st" }
+
+FUNCTION {bbl.nd}
+{ "d" }
+
+FUNCTION {bbl.rd}
+{ "d" }
+
+FUNCTION {bbl.th}
+{ "th" }
+
+MACRO {jan} {"Jan."}
+
+MACRO {feb} {"Feb."}
+
+MACRO {mar} {"Mar."}
+
+MACRO {apr} {"Apr."}
+
+MACRO {may} {"May"}
+
+MACRO {jun} {"Jun."}
+
+MACRO {jul} {"Jul."}
+
+MACRO {aug} {"Aug."}
+
+MACRO {sep} {"Sep."}
+
+MACRO {oct} {"Oct."}
+
+MACRO {nov} {"Nov."}
+
+MACRO {dec} {"Dec."}
+
+FUNCTION {eng.ord}
+{ duplicate$ "1" swap$ *
+  #-2 #1 substring$ "1" =
+     { bbl.th * }
+     { duplicate$ #-1 #1 substring$
+       duplicate$ "1" =
+         { pop$ bbl.st * }
+         { duplicate$ "2" =
+             { pop$ bbl.nd * }
+             { "3" =
+                 { bbl.rd * }
+                 { bbl.th * }
+               if$
+             }
+           if$
+          }
+       if$
+     }
+   if$
+}
+
+MACRO {acmcs} {"ACM Comput. Surv."}
+
+MACRO {acta} {"Acta Inf."}
+
+MACRO {cacm} {"Commun. ACM"}
+
+MACRO {ibmjrd} {"IBM J. Res. Dev."}
+
+MACRO {ibmsj} {"IBM Syst.~J."}
+
+MACRO {ieeese} {"IEEE Trans. Software Eng."}
+
+MACRO {ieeetc} {"IEEE Trans. Comput."}
+
+MACRO {ieeetcad}
+ {"IEEE Trans. Comput. Aid. Des."}
+
+MACRO {ipl} {"Inf. Process. Lett."}
+
+MACRO {jacm} {"J.~ACM"}
+
+MACRO {jcss} {"J.~Comput. Syst. Sci."}
+
+MACRO {scp} {"Sci. Comput. Program."}
+
+MACRO {sicomp} {"SIAM J. Comput."}
+
+MACRO {tocs} {"ACM Trans. Comput. Syst."}
+
+MACRO {tods} {"ACM Trans. Database Syst."}
+
+MACRO {tog} {"ACM Trans. Graphic."}
+
+MACRO {toms} {"ACM Trans. Math. Software"}
+
+MACRO {toois} {"ACM Trans. Office Inf. Syst."}
+
+MACRO {toplas} {"ACM Trans. Progr. Lang. Syst."}
+
+MACRO {tcs} {"Theor. Comput. Sci."}
+
+FUNCTION {bibinfo.check}
+{ swap$
+  duplicate$ missing$
+    {
+      pop$ pop$
+      ""
+    }
+    { duplicate$ empty$
+        {
+          swap$ pop$
+        }
+        { swap$
+          pop$
+        }
+      if$
+    }
+  if$
+}
+FUNCTION {bibinfo.warn}
+{ swap$
+  duplicate$ missing$
+    {
+      swap$ "missing " swap$ * " in " * cite$ * warning$ pop$
+      ""
+    }
+    { duplicate$ empty$
+        {
+          swap$ "empty " swap$ * " in " * cite$ * warning$
+        }
+        { swap$
+          pop$
+        }
+      if$
+    }
+  if$
+}
+FUNCTION {format.eprint}
+{ eprint duplicate$ empty$
+    'skip$
+    { "\eprint"
+      archive empty$
+        'skip$
+        { "[" * archive * "]" * }
+      if$
+      "{" * swap$ * "}" *
+    }
+  if$
+}
+STRINGS  { bibinfo}
+INTEGERS { nameptr namesleft numnames }
+
+FUNCTION {format.names}
+{ 'bibinfo :=
+  duplicate$ empty$ 'skip$ {
+  's :=
+  "" 't :=
+  #1 'nameptr :=
+  s num.names$ 'numnames :=
+  numnames 'namesleft :=
+    { namesleft #0 > }
+    { s nameptr
+      duplicate$ #1 >
+        { "{f.~}{vv~}{ll}{, jj}" }
+        { "{vv~}{ll}{, f.}{, jj}" }
+      if$
+      format.name$
+      bibinfo bibinfo.check
+      't :=
+      nameptr #1 >
+        {
+          namesleft #1 >
+            { ", " * t * }
+            {
+              numnames #2 >
+                { "," * }
+                'skip$
+              if$
+              s nameptr "{ll}" format.name$ duplicate$ "others" =
+                { 't := }
+                { pop$ }
+              if$
+              t "others" =
+                {
+                  " " * bbl.etal *
+                }
+                {
+                  bbl.and
+                  space.word * t *
+                }
+              if$
+            }
+          if$
+        }
+        't
+      if$
+      nameptr #1 + 'nameptr :=
+      namesleft #1 - 'namesleft :=
+    }
+  while$
+  } if$
+}
+FUNCTION {format.names.ed}
+{
+  format.names
+}
+FUNCTION {format.key}
+{ empty$
+    { key field.or.null }
+    { "" }
+  if$
+}
+
+FUNCTION {format.authors}
+{ author "author" format.names
+}
+FUNCTION {get.bbl.editor}
+{ editor num.names$ #1 > 'bbl.editors 'bbl.editor if$ }
+
+FUNCTION {format.editors}
+{ editor "editor" format.names duplicate$ empty$ 'skip$
+    {
+      "," *
+      " " *
+      get.bbl.editor
+      capitalize
+   "(" swap$ * ")" *
+      *
+    }
+  if$
+}
+FUNCTION {format.book.pages}
+{ pages "pages" bibinfo.check
+  duplicate$ empty$ 'skip$
+    { " " * bbl.pages * }
+  if$
+}
+FUNCTION {format.doi}
+{ doi "doi" bibinfo.check
+  duplicate$ empty$ 'skip$
+    {
+      "\doi{" swap$ * "}" *
+    }
+  if$
+}
+FUNCTION {format.note}
+{
+  url empty$
+    'skip$
+    { "\urlprefix\url{" url * "}" * output }
+  if$
+ note empty$
+    { "" }
+    { note #1 #1 substring$
+      duplicate$ "{" =
+        'skip$
+        { output.state mid.sentence =
+          { "l" }
+          { "u" }
+        if$
+        change.case$
+        }
+      if$
+      note #2 global.max$ substring$ * "note" bibinfo.check
+    }
+  if$
+}
+
+FUNCTION {format.title}
+{ title
+  duplicate$ empty$ 'skip$
+    { "t" change.case$ }
+  if$
+  "title" bibinfo.check
+}
+FUNCTION {format.full.names}
+{'s :=
+ "" 't :=
+  #1 'nameptr :=
+  s num.names$ 'numnames :=
+  numnames 'namesleft :=
+    { namesleft #0 > }
+    { s nameptr
+      "{vv~}{ll}" format.name$
+      't :=
+      nameptr #1 >
+        {
+          namesleft #1 >
+            { ", " * t * }
+            {
+              s nameptr "{ll}" format.name$ duplicate$ "others" =
+                { 't := }
+                { pop$ }
+              if$
+              t "others" =
+                {
+                  " " * bbl.etal *
+                }
+                {
+                  numnames #2 >
+                    { "," * }
+                    'skip$
+                  if$
+                  bbl.and
+                  space.word * t *
+                }
+              if$
+            }
+          if$
+        }
+        't
+      if$
+      nameptr #1 + 'nameptr :=
+      namesleft #1 - 'namesleft :=
+    }
+  while$
+}
+
+FUNCTION {author.editor.key.full}
+{ author empty$
+    { editor empty$
+        { key empty$
+            { cite$ #1 #3 substring$ }
+            'key
+          if$
+        }
+        { editor format.full.names }
+      if$
+    }
+    { author format.full.names }
+  if$
+}
+
+FUNCTION {author.key.full}
+{ author empty$
+    { key empty$
+         { cite$ #1 #3 substring$ }
+          'key
+      if$
+    }
+    { author format.full.names }
+  if$
+}
+
+FUNCTION {editor.key.full}
+{ editor empty$
+    { key empty$
+         { cite$ #1 #3 substring$ }
+          'key
+      if$
+    }
+    { editor format.full.names }
+  if$
+}
+
+FUNCTION {make.full.names}
+{ type$ "book" =
+  type$ "inbook" =
+  or
+    'author.editor.key.full
+    { type$ "proceedings" =
+        'editor.key.full
+        'author.key.full
+      if$
+    }
+  if$
+}
+
+FUNCTION {output.bibitem}
+{ newline$
+  "\bibitem[{" write$
+  label write$
+  ")" make.full.names duplicate$ short.list =
+     { pop$ }
+     { * }
+   if$
+  "}]{" * write$
+  cite$ write$
+  "}" write$
+  newline$
+  ""
+  before.all 'output.state :=
+}
+
+FUNCTION {if.digit}
+{ duplicate$ "0" =
+  swap$ duplicate$ "1" =
+  swap$ duplicate$ "2" =
+  swap$ duplicate$ "3" =
+  swap$ duplicate$ "4" =
+  swap$ duplicate$ "5" =
+  swap$ duplicate$ "6" =
+  swap$ duplicate$ "7" =
+  swap$ duplicate$ "8" =
+  swap$ "9" = or or or or or or or or or
+}
+FUNCTION {n.separate}
+{ 't :=
+  ""
+  #0 'numnames :=
+  { t empty$ not }
+  { t #-1 #1 substring$ if.digit
+      { numnames #1 + 'numnames := }
+      { #0 'numnames := }
+    if$
+    t #-1 #1 substring$ swap$ *
+    t #-2 global.max$ substring$ 't :=
+    numnames #5 =
+      { duplicate$ #1 #2 substring$ swap$
+        #3 global.max$ substring$
+        "\," swap$ * *
+      }
+      'skip$
+    if$
+  }
+  while$
+}
+FUNCTION {n.dashify}
+{
+  n.separate
+  't :=
+  ""
+    { t empty$ not }
+    { t #1 #1 substring$ "-" =
+        { t #1 #2 substring$ "--" = not
+            { "--" *
+              t #2 global.max$ substring$ 't :=
+            }
+            {   { t #1 #1 substring$ "-" = }
+                { "-" *
+                  t #2 global.max$ substring$ 't :=
+                }
+              while$
+            }
+          if$
+        }
+        { t #1 #1 substring$ *
+          t #2 global.max$ substring$ 't :=
+        }
+      if$
+    }
+  while$
+}
+
+FUNCTION {word.in}
+{ "" }
+
+FUNCTION {format.date}
+{ year "year" bibinfo.check duplicate$ empty$
+    {
+      "empty year in " cite$ * "; set to ????" * warning$
+       pop$ "????"
+    }
+    'skip$
+  if$
+  extra.label *
+  before.all 'output.state :=
+  ", " swap$ *
+}
+FUNCTION {format.btitle}
+{ title "title" bibinfo.check
+  duplicate$ empty$ 'skip$
+    {
+      emphasize
+    }
+  if$
+}
+FUNCTION {either.or.check}
+{ empty$
+    'pop$
+    { "can't use both " swap$ * " fields in " * cite$ * warning$ }
+  if$
+}
+FUNCTION {format.bvolume}
+{ volume empty$
+    { "" }
+    { bbl.volume volume tie.or.space.prefix
+      "volume" bibinfo.check * *
+      series "series" bibinfo.check
+      duplicate$ empty$ 'pop$
+%%% NO ITALIC SERIES        { emphasize ", " * swap$ * }
+      {", " * swap$ * }
+      if$
+      "volume and number" number either.or.check
+    }
+  if$
+}
+FUNCTION {format.number.series}
+{ volume empty$
+    { number empty$
+        { series field.or.null }
+        { series empty$
+            { number "number" bibinfo.check }
+            { output.state mid.sentence =
+                { bbl.number }
+                { bbl.number capitalize }
+              if$
+              number tie.or.space.prefix "number" bibinfo.check * *
+              bbl.in space.word *
+              series "series" bibinfo.check *
+            }
+          if$
+        }
+      if$
+    }
+    { "" }
+  if$
+}
+FUNCTION {is.num}
+{ chr.to.int$
+  duplicate$ "0" chr.to.int$ < not
+  swap$ "9" chr.to.int$ > not and
+}
+
+FUNCTION {extract.num}
+{ duplicate$ 't :=
+  "" 's :=
+  { t empty$ not }
+  { t #1 #1 substring$
+    t #2 global.max$ substring$ 't :=
+    duplicate$ is.num
+      { s swap$ * 's := }
+      { pop$ "" 't := }
+    if$
+  }
+  while$
+  s empty$
+    'skip$
+    { pop$ s }
+  if$
+}
+
+FUNCTION {convert.edition}
+{ extract.num "l" change.case$ 's :=
+  s "first" = s "1" = or
+    { bbl.first 't := }
+    { s "second" = s "2" = or
+        { bbl.second 't := }
+        { s "third" = s "3" = or
+            { bbl.third 't := }
+            { s "fourth" = s "4" = or
+                { bbl.fourth 't := }
+                { s "fifth" = s "5" = or
+                    { bbl.fifth 't := }
+                    { s #1 #1 substring$ is.num
+                        { s eng.ord 't := }
+                        { edition 't := }
+                      if$
+                    }
+                  if$
+                }
+              if$
+            }
+          if$
+        }
+      if$
+    }
+  if$
+  t
+}
+
+FUNCTION {format.edition}
+{ edition duplicate$ empty$ 'skip$
+    {
+      convert.edition
+      output.state mid.sentence =
+        { "l" }
+        { "t" }
+      if$ change.case$
+      "edition" bibinfo.check
+      " " * bbl.edition *
+    }
+  if$
+}
+INTEGERS { multiresult }
+FUNCTION {multi.page.check}
+{ 't :=
+  #0 'multiresult :=
+    { multiresult not
+      t empty$ not
+      and
+    }
+    { t #1 #1 substring$
+      duplicate$ "-" =
+      swap$ duplicate$ "," =
+      swap$ "+" =
+      or or
+        { #1 'multiresult := }
+        { t #2 global.max$ substring$ 't := }
+      if$
+    }
+  while$
+  multiresult
+}
+FUNCTION {format.pages}
+{ pages duplicate$ empty$ 'skip$
+    { duplicate$ multi.page.check
+        {
+          n.dashify
+        }
+        {
+        }
+      if$
+      "pages" bibinfo.check
+    }
+  if$
+}
+FUNCTION {format.journal.pages}
+{ pages duplicate$ empty$ 'pop$
+    { swap$ duplicate$ empty$
+        { pop$ pop$ format.pages }
+        {
+          ", " *
+          swap$
+          n.dashify
+          "pages" bibinfo.check
+          *
+        }
+      if$
+    }
+  if$
+}
+FUNCTION {format.journal.eid}
+{ eid "eid" bibinfo.check
+  duplicate$ empty$ 'pop$
+    { swap$ duplicate$ empty$ 'skip$
+      {
+          ", " *
+      }
+      if$
+      swap$ *
+    }
+  if$
+}
+FUNCTION {format.vol.num.pages}
+{ volume field.or.null
+  duplicate$ empty$ 'skip$
+    {
+      "volume" bibinfo.check
+    }
+  if$
+  number "number" bibinfo.check duplicate$ empty$ 'skip$
+    {
+      swap$ duplicate$ empty$
+        { "there's a number but no volume in " cite$ * warning$ }
+        'skip$
+      if$
+      swap$
+      "~(" swap$ * ")" *
+    }
+  if$ *
+  bolden
+  eid empty$
+    { format.journal.pages }
+    { format.journal.eid }
+  if$
+}
+
+FUNCTION {format.chapter.pages}
+{ chapter empty$
+    'format.pages
+    { type empty$
+        { bbl.chapter }
+        { type "l" change.case$
+          "type" bibinfo.check
+        }
+      if$
+      chapter tie.or.space.prefix
+      "chapter" bibinfo.check
+      * *
+      pages empty$
+        'skip$
+        { ", " * format.pages * }
+      if$
+    }
+  if$
+}
+
+FUNCTION {format.booktitle}
+{
+  booktitle "booktitle" bibinfo.check
+  emphasize
+}
+FUNCTION {format.in.ed.booktitle}
+{ format.booktitle duplicate$ empty$ 'skip$
+    {
+      editor "editor" format.names.ed duplicate$ empty$ 'pop$
+        {
+          get.bbl.editor
+          swap$ "," *
+          " " * swap$ *
+          swap$
+          "," *
+          " " * swap$
+          * }
+      if$
+      word.in swap$ *
+    }
+  if$
+}
+FUNCTION {format.thesis.type}
+{ type duplicate$ empty$
+    'pop$
+    { swap$ pop$
+      "t" change.case$ "type" bibinfo.check
+    }
+  if$
+}
+FUNCTION {format.tr.number}
+{ number "number" bibinfo.check
+  type duplicate$ empty$
+    { pop$ bbl.techrep }
+    'skip$
+  if$
+  "type" bibinfo.check
+  swap$ duplicate$ empty$
+    { pop$ "t" change.case$ }
+    { tie.or.space.prefix * * }
+  if$
+}
+FUNCTION {format.article.crossref}
+{
+  word.in
+  " \cite{" * crossref * "}" *
+}
+FUNCTION {format.book.crossref}
+{ volume duplicate$ empty$
+    { "empty volume in " cite$ * "'s crossref of " * crossref * warning$
+      pop$ word.in
+    }
+    { bbl.volume
+      capitalize
+      swap$ tie.or.space.prefix "volume" bibinfo.check * * bbl.of space.word *
+    }
+  if$
+  " \cite{" * crossref * "}" *
+}
+FUNCTION {format.incoll.inproc.crossref}
+{
+  word.in
+  " \cite{" * crossref * "}" *
+}
+FUNCTION {format.org.or.pub}
+{ 't :=
+  ""
+  address empty$ t empty$ and
+    'skip$
+    {
+      t empty$
+        { address "address" bibinfo.check *
+        }
+        { t *
+          address empty$
+            'skip$
+            { ", " * address "address" bibinfo.check * }
+          if$
+        }
+      if$
+    }
+  if$
+}
+FUNCTION {format.publisher.address}
+{ publisher "publisher" bibinfo.warn format.org.or.pub
+}
+
+FUNCTION {format.organization.address}
+{ organization "organization" bibinfo.check format.org.or.pub
+}
+
+STRINGS {oldname}
+
+FUNCTION {name.or.dash}
+{ 's :=
+   oldname empty$
+     { s 'oldname := s }
+     { s oldname =
+         { "---{}---{}---" }
+         { s 'oldname := s }
+       if$
+     }
+   if$
+}
+
+FUNCTION {article}
+{ output.bibitem
+  format.authors "author" output.check
+  author format.key output
+  name.or.dash
+  format.date "year" output.check
+  date.block
+  format.title "title" output.check
+  new.sentence
+  crossref missing$
+    {
+      journal
+      "journal" bibinfo.check
+      emphasize
+      "journal" output.check
+      format.vol.num.pages output
+  format.doi output
+    }
+    { format.article.crossref output.nonnull
+      format.pages output
+    }
+  if$
+  format.note output
+  format.eprint output
+  fin.entry
+}
+FUNCTION {book}
+{ output.bibitem
+  author empty$
+    { format.editors "author and editor" output.check
+      editor format.key output
+      add.blank
+      name.or.dash
+    }
+    { format.authors output.nonnull
+      name.or.dash
+      crossref missing$
+        { "author and editor" editor either.or.check }
+        'skip$
+      if$
+    }
+  if$
+  format.date "year" output.check
+  date.block
+  format.btitle "title" output.check
+  crossref missing$
+    { format.bvolume output
+  new.sentence
+      format.edition output
+      format.number.series output
+      format.publisher.address output
+    }
+    {
+  new.sentence
+      format.book.crossref output.nonnull
+    }
+  if$
+  format.book.pages output
+  format.doi output
+  format.note output
+  format.eprint output
+  fin.entry
+}
+FUNCTION {booklet}
+{ output.bibitem
+  format.authors output
+  author format.key output
+  name.or.dash
+  format.date "year" output.check
+  date.block
+  format.title "title" output.check
+  new.sentence
+  howpublished "howpublished" bibinfo.check output
+  address "address" bibinfo.check output
+  format.book.pages output
+  format.doi output
+  format.note output
+  format.eprint output
+  fin.entry
+}
+
+FUNCTION {inbook}
+{ output.bibitem
+  author empty$
+    { format.editors "author and editor" output.check
+      editor format.key output
+      name.or.dash
+    }
+    { format.authors output.nonnull
+      name.or.dash
+      crossref missing$
+        { "author and editor" editor either.or.check }
+        'skip$
+      if$
+    }
+  if$
+  format.date "year" output.check
+  date.block
+  format.btitle "title" output.check
+  crossref missing$
+    {
+      format.bvolume output
+      format.chapter.pages "chapter and pages" output.check
+  new.sentence
+      format.edition output
+      format.number.series output
+      format.publisher.address output
+    }
+    {
+      format.chapter.pages "chapter and pages" output.check
+  new.sentence
+      format.book.crossref output.nonnull
+    }
+  if$
+  format.doi output
+  format.note output
+  format.eprint output
+  fin.entry
+}
+
+FUNCTION {incollection}
+{ output.bibitem
+  format.authors "author" output.check
+  author format.key output
+  name.or.dash
+  format.date "year" output.check
+  date.block
+  format.title "title" output.check
+  new.sentence
+  crossref missing$
+    { format.in.ed.booktitle "booktitle" output.check
+      format.publisher.address output      
+      format.bvolume output
+      format.number.series output
+      format.edition output
+      format.chapter.pages output
+    }
+    { format.incoll.inproc.crossref output.nonnull
+      format.chapter.pages output
+    }
+  if$
+  format.doi output
+  format.note output
+  format.eprint output
+  fin.entry
+}
+FUNCTION {inproceedings}
+{ output.bibitem
+  format.authors "author" output.check
+  author format.key output
+  name.or.dash
+  format.date "year" output.check
+  date.block
+  format.title "title" output.check
+  new.sentence
+  crossref missing$
+    { format.in.ed.booktitle "booktitle" output.check
+      publisher empty$
+        { format.organization.address output }
+        { organization "organization" bibinfo.check output
+          format.publisher.address output
+        }
+      if$
+      format.bvolume output
+      format.pages output
+      format.number.series output
+      howpublished "howpublished" bibinfo.check output
+    }
+    { format.incoll.inproc.crossref output.nonnull
+      format.pages output
+    }
+  if$
+  format.doi output
+  format.note output
+  format.eprint output
+  fin.entry
+}
+FUNCTION {conference} { inproceedings }
+FUNCTION {manual}
+{ output.bibitem
+  format.authors output
+  author format.key output
+  name.or.dash
+  format.date "year" output.check
+  date.block
+  format.btitle "title" output.check
+  new.sentence
+  organization "organization" bibinfo.check output
+  address "address" bibinfo.check output
+  format.edition output
+  format.doi output
+  format.note output
+  format.eprint output
+  fin.entry
+}
+
+FUNCTION {mastersthesis}
+{ output.bibitem
+  format.authors "author" output.check
+  author format.key output
+  name.or.dash
+  format.date "year" output.check
+  date.block
+  format.title
+  "title" output.check
+  new.sentence
+  bbl.mthesis format.thesis.type output.nonnull
+  department "department" bibinfo.warn output
+  school "school" bibinfo.warn output
+  address "address" bibinfo.check output
+  format.doi output
+  format.note output
+  format.eprint output
+  fin.entry
+}
+
+FUNCTION {misc}
+{ output.bibitem
+  format.authors output
+  author format.key output
+  name.or.dash
+  format.date "year" output.check
+  date.block
+  format.title output
+  new.sentence
+  howpublished "howpublished" bibinfo.check output
+  format.doi output
+  format.note output
+  format.eprint output
+  fin.entry
+}
+FUNCTION {phdthesis}
+{ output.bibitem
+  format.authors "author" output.check
+  author format.key output
+  name.or.dash
+  format.date "year" output.check
+  date.block
+  format.title
+  "title" output.check
+  new.sentence
+  bbl.phdthesis format.thesis.type output.nonnull
+  school "school" bibinfo.warn output
+  address "address" bibinfo.check output
+  format.doi output
+  format.note output
+  format.eprint output
+  fin.entry
+}
+
+FUNCTION {proceedings}
+{ output.bibitem
+  format.editors output
+  editor format.key output
+  name.or.dash
+  format.date "year" output.check
+  date.block
+  format.btitle "title" output.check
+  format.bvolume output
+  format.number.series output
+  publisher empty$
+    { format.organization.address output }
+    { organization "organization" bibinfo.check output
+      format.publisher.address output
+    }
+  if$
+  format.doi output
+  format.note output
+  format.eprint output
+  fin.entry
+}
+
+FUNCTION {techreport}
+{ output.bibitem
+  format.authors "author" output.check
+  author format.key output
+  name.or.dash
+  format.date "year" output.check
+  date.block
+  format.title
+  "title" output.check
+  new.sentence
+  format.tr.number output.nonnull
+  institution "institution" bibinfo.warn output
+  address "address" bibinfo.check output
+  format.doi output
+  format.note output
+  format.eprint output
+  fin.entry
+}
+
+FUNCTION {unpublished}
+{ output.bibitem
+  format.authors "author" output.check
+  author format.key output
+  name.or.dash
+  format.date "year" output.check
+  date.block
+  format.title "title" output.check
+  format.doi output
+  format.note "note" output.check
+  format.eprint output
+  fin.entry
+}
+
+FUNCTION {default.type} { misc }
+READ
+FUNCTION {sortify}
+{ purify$
+  "l" change.case$
+}
+INTEGERS { len }
+FUNCTION {chop.word}
+{ 's :=
+  'len :=
+  s #1 len substring$ =
+    { s len #1 + global.max$ substring$ }
+    's
+  if$
+}
+FUNCTION {format.lab.names}
+{ 's :=
+  "" 't :=
+  s #1 "{vv~}{ll}" format.name$
+  s num.names$ duplicate$
+  #2 >
+    { pop$
+      " " * bbl.etal *
+    }
+    { #2 <
+        'skip$
+        { s #2 "{ff }{vv }{ll}{ jj}" format.name$ "others" =
+            {
+              " " * bbl.etal *
+            }
+            { bbl.and space.word * s #2 "{vv~}{ll}" format.name$
+              * }
+          if$
+        }
+      if$
+    }
+  if$
+}
+
+FUNCTION {author.key.label}
+{ author empty$
+    { key empty$
+        { cite$ #1 #3 substring$ }
+        'key
+      if$
+    }
+    { author format.lab.names }
+  if$
+}
+
+FUNCTION {author.editor.key.label}
+{ author empty$
+    { editor empty$
+        { key empty$
+            { cite$ #1 #3 substring$ }
+            'key
+          if$
+        }
+        { editor format.lab.names }
+      if$
+    }
+    { author format.lab.names }
+  if$
+}
+
+FUNCTION {editor.key.label}
+{ editor empty$
+    { key empty$
+        { cite$ #1 #3 substring$ }
+        'key
+      if$
+    }
+    { editor format.lab.names }
+  if$
+}
+
+FUNCTION {calc.short.authors}
+{ type$ "book" =
+  type$ "inbook" =
+  or
+    'author.editor.key.label
+    { type$ "proceedings" =
+        'editor.key.label
+        'author.key.label
+      if$
+    }
+  if$
+  'short.list :=
+}
+
+FUNCTION {calc.label}
+{ calc.short.authors
+  short.list
+  "("
+  *
+  year duplicate$ empty$
+     { pop$ "????" }
+     { purify$ #-1 #4 substring$ }
+  if$
+  *
+  'label :=
+}
+
+FUNCTION {sort.format.names}
+{ 's :=
+  #1 'nameptr :=
+  ""
+  s num.names$ 'numnames :=
+  numnames 'namesleft :=
+    { namesleft #0 > }
+    { s nameptr
+      "{vv{ } }{ll{ }}{  f{ }}{  jj{ }}"
+      format.name$ 't :=
+      nameptr #1 >
+        {
+          "   "  *
+          namesleft #1 = t "others" = and
+            { "zzzzz" * }
+            { t sortify * }
+          if$
+        }
+        { t sortify * }
+      if$
+      nameptr #1 + 'nameptr :=
+      namesleft #1 - 'namesleft :=
+    }
+  while$
+}
+
+FUNCTION {sort.format.title}
+{ 't :=
+  "A " #2
+    "An " #3
+      "The " #4 t chop.word
+    chop.word
+  chop.word
+  sortify
+  #1 global.max$ substring$
+}
+FUNCTION {author.sort}
+{ author empty$
+    { key empty$
+        { "to sort, need author or key in " cite$ * warning$
+          ""
+        }
+        { key sortify }
+      if$
+    }
+    { author sort.format.names }
+  if$
+}
+FUNCTION {author.editor.sort}
+{ author empty$
+    { editor empty$
+        { key empty$
+            { "to sort, need author, editor, or key in " cite$ * warning$
+              ""
+            }
+            { key sortify }
+          if$
+        }
+        { editor sort.format.names }
+      if$
+    }
+    { author sort.format.names }
+  if$
+}
+FUNCTION {editor.sort}
+{ editor empty$
+    { key empty$
+        { "to sort, need editor or key in " cite$ * warning$
+          ""
+        }
+        { key sortify }
+      if$
+    }
+    { editor sort.format.names }
+  if$
+}
+FUNCTION {presort}
+{ calc.label
+  label sortify
+  "    "
+  *
+  type$ "book" =
+  type$ "inbook" =
+  or
+    'author.editor.sort
+    { type$ "proceedings" =
+        'editor.sort
+        'author.sort
+      if$
+    }
+  if$
+  #1 entry.max$ substring$
+  'sort.label :=
+  sort.label
+  *
+  "    "
+  *
+  title field.or.null
+  sort.format.title
+  *
+  #1 entry.max$ substring$
+  'sort.key$ :=
+}
+
+ITERATE {presort}
+SORT
+STRINGS { last.label next.extra }
+INTEGERS { last.extra.num number.label }
+FUNCTION {initialize.extra.label.stuff}
+{ #0 int.to.chr$ 'last.label :=
+  "" 'next.extra :=
+  #0 'last.extra.num :=
+  #0 'number.label :=
+}
+FUNCTION {forward.pass}
+{ last.label label =
+    { last.extra.num #1 + 'last.extra.num :=
+      last.extra.num int.to.chr$ 'extra.label :=
+    }
+    { "a" chr.to.int$ 'last.extra.num :=
+      "" 'extra.label :=
+      label 'last.label :=
+    }
+  if$
+  number.label #1 + 'number.label :=
+}
+FUNCTION {reverse.pass}
+{ next.extra "b" =
+    { "a" 'extra.label := }
+    'skip$
+  if$
+  extra.label 'next.extra :=
+  extra.label
+  duplicate$ empty$
+    'skip$
+    { "{\natexlab{" swap$ * "}}" * }
+  if$
+  'extra.label :=
+  label extra.label * 'label :=
+}
+EXECUTE {initialize.extra.label.stuff}
+ITERATE {forward.pass}
+REVERSE {reverse.pass}
+FUNCTION {bib.sort.order}
+{ sort.label
+  "    "
+  *
+  year field.or.null sortify
+  *
+  "    "
+  *
+  title field.or.null
+  sort.format.title
+  *
+  #1 entry.max$ substring$
+  'sort.key$ :=
+}
+ITERATE {bib.sort.order}
+SORT
+FUNCTION {begin.bib}
+{ preamble$ empty$
+    'skip$
+    { preamble$ write$ newline$ }
+  if$
+  "\begin{thebibliography}{" number.label int.to.str$ * "}" *
+  write$ newline$
+  "\providecommand{\natexlab}[1]{#1}"
+  write$ newline$
+  "\providecommand{\url}[1]{\texttt{#1}}"
+  write$ newline$
+  "\providecommand{\urlprefix}{URL }"
+  write$ newline$
+  "\expandafter\ifx\csname urlstyle\endcsname\relax"
+  write$ newline$
+  "  \providecommand{\doi}[1]{doi:\discretionary{}{}{}#1}\else"
+  write$ newline$
+  "  \providecommand{\doi}{doi:\discretionary{}{}{}\begingroup \urlstyle{rm}\Url}\fi"
+  write$ newline$
+  "\providecommand{\eprint}[2][]{\url{#2}}"
+  write$ newline$
+}
+EXECUTE {begin.bib}
+EXECUTE {init.state.consts}
+ITERATE {call.type$}
+FUNCTION {end.bib}
+{ newline$
+  "\end{thebibliography}" write$ newline$
+}
+EXECUTE {end.bib}
+%% End of customized bst file
+%%
+%% End of file `ametsoc7.bst'.
Index: /branches/2015/nemo_v3_6_STABLE/DOC/TexFiles/Styles/math_abbrev.sty
===================================================================
--- /branches/2015/nemo_v3_6_STABLE/DOC/TexFiles/Styles/math_abbrev.sty	(revision 6992)
+++ /branches/2015/nemo_v3_6_STABLE/DOC/TexFiles/Styles/math_abbrev.sty	(revision 6992)
@@ -0,0 +1,36 @@
+\def\half{\textstyle\frac{1}{2}}
+\def\hhalf{\scriptstyle\frac{1}{2}}
+\def\quarter{\textstyle\frac{1}{4}}
+\def\qquarter{\scriptstyle\frac{1}{4}}
+\def\squarter{\sfrac{1}{4}}
+\def\stwelfth{\sfrac{1}{12}}
+\def\sthirtysixth{\sfrac{1}{36}}
+% \newcommand{\grad}{\boldsymbol{\nabla}}
+% \newcommand{\gradh}{\boldsymbol{\nabla}_h}
+\newcommand{\grad}{\nabla}
+\newcommand{\gradh}{\nabla_h}
+\def\bgamma\boldsymbol{\gamma}
+\def\rdt{\Delta t}
+\newcommand{\ew}[3]{{e_{3#1}}_{\,#2}^{\,#3} }
+\newcommand{\vect}[1]{\ensuremath{\mathbf{#1}}} % for vectors                                % non-italic bold
+\newcommand{\Div}{\grad\cdot}
+% \newcommand{\curl}{\boldsymbol{\nabla} \times} % for curl
+\newcommand{\curl}{\nabla \times} % for curl
+\newcommand{\pd}[2][]{\frac{\partial #1}{\partial #2}}
+\def\deg{$^{\circ}$}                           % degrees  (NB: \r{} can % % also be used)
+\def\degC{$^{\circ}C$}
+\def\degK{$^{\circ}K$}
+\def\degN{$^{\circ}N$}
+\def\degS{$^{\circ}S$}
+\newcommand{\alpbet} {\left(\alpha / \beta \right)} 	% alpha/beta  for slp computation
+\newcommand{\triad}[6][]{\ensuremath{{}_{#2}^{#3}{\mathbb{#4}_{#1}}_{#5}^{\,#6}}}
+\newcommand{\triadd}[5]{\ensuremath{{}_{#1}^{#2}{\mathbb{#3}}_{#4}^{\,#5}}}
+\newcommand{\triadt}[5]{\ensuremath{{}_{#1}^{#2}{\tilde{\mathbb{#3}}}_{#4}^{\,#5}}}
+\newcommand{\rtriad}[2][]{\ensuremath{\triad[#1]{i}{k}{#2}{i_p}{k_p}}}
+\newcommand{\rtriadt}[1]{\ensuremath{\triadt{i}{k}{#1}{i_p}{k_p}}}
+\newcommand{\Alts}{{A}}
+\newcommand{\Alt}{{A^{lT}}}
+\newcommand{\rMLt}[1][i]{\tilde{r}_{\mathrm{ML}\,#1}}
+\newcommand{\rML}[1][i]{r_{\mathrm{ML}\,#1}}
+\newcommand{\mygstrut}[2]{\rule[#1 em]{0pt}{#2 em}}
+\newcommand{\mystrut}{\rule[-.9 em]{0pt}{1.79 em}}
Index: anches/2015/nemo_v3_6_STABLE/DOC/TexFiles/ametsoc.bst
===================================================================
--- /branches/2015/nemo_v3_6_STABLE/DOC/TexFiles/ametsoc.bst	(revision 6991)
+++ 	(revision )
@@ -1,1662 +1,0 @@
-%%
-%% This is file `ametsoc7.bst',
-%% generated with the docstrip utility.
-%%
-%% The original source files were:
-%%
-%% merlin.mbs  (with options: `ay,nat,nm-rev1,ed-rev,jnrlst,nmdash,nmd-3,dt-beg,yr-com,yrp-col,thtit-a,vol-2bf,vnum-sp,volp-com,pgsep-s,num-xser,numser,ser-vol,bkpg-x,pg-bk,pre-edn,agu-doi,doi,edparc,bkedcap,edby,edbyy,blk-tit,in-x,pp,ed,abr,ednx,ord,jabr,eprint,url,url-nt,em-it,nfss,')
-%% ----------------------------------------
-%% *** Bibliography style file for ALL AMS Journals...version 1.0  ***
-%% *** Brian Papa - American Meteorological Society ***
-%% 
-%% Copyright 1994-2004 Patrick W Daly
- % ===============================================================
- % IMPORTANT NOTICE:
- % This bibliographic style (bst) file has been generated from one or
- % more master bibliographic style (mbs) files, listed above.
- %
- % This generated file can be redistributed and/or modified under the terms
- % of the LaTeX Project Public License Distributed from CTAN
- % archives in directory macros/latex/base/lppl.txt; either
- % version 1 of the License, or any later version.
- % ===============================================================
- % Name and version information of the main mbs file:
- % \ProvidesFile{merlin.mbs}[2004/02/09 4.13 (PWD, AO, DPC)]
- %   For use with BibTeX version 0.99a or later
- %-------------------------------------------------------------------
- % This bibliography style file is intended for texts in ENGLISH
- % This is an author-year citation style bibliography. As such, it is
- % non-standard LaTeX, and requires a special package file to function properly.
- % Such a package is    natbib.sty   by Patrick W. Daly
- % The form of the \bibitem entries is
- %   \bibitem[Jones et al.(1990)]{key}...
- %   \bibitem[Jones et al.(1990)Jones, Baker, and Smith]{key}...
- % The essential feature is that the label (the part in brackets) consists
- % of the author names, as they should appear in the citation, with the year
- % in parentheses following. There must be no space before the opening
- % parenthesis!
- % With natbib v5.3, a full list of authors may also follow the year.
- % In natbib.sty, it is possible to define the type of enclosures that is
- % really wanted (brackets or parentheses), but in either case, there must
- % be parentheses in the label.
- % The \cite command functions as follows:
- %   \citet{key} ==>>                Jones et al. (1990)
- %   \citet*{key} ==>>               Jones, Baker, and Smith (1990)
- %   \citep{key} ==>>                (Jones et al., 1990)
- %   \citep*{key} ==>>               (Jones, Baker, and Smith, 1990)
- %   \citep[chap. 2]{key} ==>>       (Jones et al., 1990, chap. 2)
- %   \citep[e.g.][]{key} ==>>        (e.g. Jones et al., 1990)
- %   \citep[e.g.][p. 32]{key} ==>>   (e.g. Jones et al., p. 32)
- %   \citeauthor{key} ==>>           Jones et al.
- %   \citeauthor*{key} ==>>          Jones, Baker, and Smith
- %   \citeyear{key} ==>>             1990
- %---------------------------------------------------------------------
-
-ENTRY
-  { address
-    archive
-    author
-    booktitle
-    chapter
-    doi
-    edition
-    editor
-    eid
-    eprint
-    howpublished
-    department
-    institution
-    journal
-    key
-    month
-    note
-    number
-    organization
-    pages
-    publisher
-    school
-    series
-    title
-    type
-    url
-    volume
-    year
-  }
-  {}
-  { label extra.label sort.label short.list }
-INTEGERS { output.state before.all mid.sentence after.sentence after.block }
-FUNCTION {init.state.consts}
-{ #0 'before.all :=
-  #1 'mid.sentence :=
-  #2 'after.sentence :=
-  #3 'after.block :=
-}
-STRINGS { s t}
-FUNCTION {output.nonnull}
-{ 's :=
-  output.state mid.sentence =
-    { ", " * write$ }
-    { output.state after.block =
-        { add.period$ write$
-          newline$
-          "\newblock " write$
-        }
-        { output.state before.all =
-            'write$
-            { add.period$ " " * write$ }
-          if$
-        }
-      if$
-      mid.sentence 'output.state :=
-    }
-  if$
-  s
-}
-FUNCTION {output}
-{ duplicate$ empty$
-    'pop$
-    'output.nonnull
-  if$
-}
-FUNCTION {output.check}
-{ 't :=
-  duplicate$ empty$
-    { pop$ "empty " t * " in " * cite$ * warning$ }
-    'output.nonnull
-  if$
-}
-FUNCTION {fin.entry}
-{ add.period$
-  write$
-  newline$
-}
-
-FUNCTION {new.block}
-{ output.state before.all =
-    'skip$
-    { after.block 'output.state := }
-  if$
-}
-FUNCTION {new.sentence}
-{ output.state after.block =
-    'skip$
-    { output.state before.all =
-        'skip$
-        { after.sentence 'output.state := }
-      if$
-    }
-  if$
-}
-FUNCTION {add.blank}
-{  " " * before.all 'output.state :=
-}
-
-FUNCTION {date.block}
-{
-  ":" *
-  add.blank
-}
-
-FUNCTION {not}
-{   { #0 }
-    { #1 }
-  if$
-}
-FUNCTION {and}
-{   'skip$
-    { pop$ #0 }
-  if$
-}
-FUNCTION {or}
-{   { pop$ #1 }
-    'skip$
-  if$
-}
-FUNCTION {new.block.checkb}
-{ empty$
-  swap$ empty$
-  and
-    'skip$
-    'new.block
-  if$
-}
-FUNCTION {field.or.null}
-{ duplicate$ empty$
-    { pop$ "" }
-    'skip$
-  if$
-}
-FUNCTION {emphasize}
-{ duplicate$ empty$
-    { pop$ "" }
-    { "\textit{" swap$ * "}" * }
-  if$
-}
-FUNCTION {bolden}
-{ duplicate$ empty$
-    { pop$ "" }
-    { "\textbf{" swap$ * "}" * }
-  if$
-}
-FUNCTION {tie.or.space.prefix}
-{ duplicate$ text.length$ #3 <
-    { "~" }
-    { " " }
-  if$
-  swap$
-}
-
-FUNCTION {capitalize}
-{ "u" change.case$ "t" change.case$ }
-
-FUNCTION {space.word}
-{ " " swap$ * " " * }
- % Here are the language-specific definitions for explicit words.
- % Each function has a name bbl.xxx where xxx is the English word.
- % The language selected here is ENGLISH
-FUNCTION {bbl.and}
-{ "and"}
-
-FUNCTION {bbl.etal}
-{ "et~al." }
-
-FUNCTION {bbl.editors}
-{ "Eds." }
-
-FUNCTION {bbl.editor}
-{ "Ed." }
-
-FUNCTION {bbl.edby}
-{ "edited by" }
-
-FUNCTION {bbl.edition}
-{ "ed." }
-
-FUNCTION {bbl.volume}
-{ "Vol." }
-
-FUNCTION {bbl.of}
-{ "of" }
-
-FUNCTION {bbl.number}
-{ "No." }
-
-FUNCTION {bbl.nr}
-{ "No." }
-
-FUNCTION {bbl.in}
-{ "in" }
-
-FUNCTION {bbl.pages}
-{ "pp." }
-
-FUNCTION {bbl.page}
-{ "p." }
-
-FUNCTION {bbl.chapter}
-{ "chap." }
-
-FUNCTION {bbl.techrep}
-{ "Tech. Rep." }
-
-FUNCTION {bbl.mthesis}
-{ "Master's thesis" }
-
-FUNCTION {bbl.phdthesis}
-{ "Ph.D. thesis" }
-
-FUNCTION {bbl.first}
-{ "1st" }
-
-FUNCTION {bbl.second}
-{ "2d" }
-
-FUNCTION {bbl.third}
-{ "3d" }
-
-FUNCTION {bbl.fourth}
-{ "4th" }
-
-FUNCTION {bbl.fifth}
-{ "5th" }
-
-FUNCTION {bbl.st}
-{ "st" }
-
-FUNCTION {bbl.nd}
-{ "d" }
-
-FUNCTION {bbl.rd}
-{ "d" }
-
-FUNCTION {bbl.th}
-{ "th" }
-
-MACRO {jan} {"Jan."}
-
-MACRO {feb} {"Feb."}
-
-MACRO {mar} {"Mar."}
-
-MACRO {apr} {"Apr."}
-
-MACRO {may} {"May"}
-
-MACRO {jun} {"Jun."}
-
-MACRO {jul} {"Jul."}
-
-MACRO {aug} {"Aug."}
-
-MACRO {sep} {"Sep."}
-
-MACRO {oct} {"Oct."}
-
-MACRO {nov} {"Nov."}
-
-MACRO {dec} {"Dec."}
-
-FUNCTION {eng.ord}
-{ duplicate$ "1" swap$ *
-  #-2 #1 substring$ "1" =
-     { bbl.th * }
-     { duplicate$ #-1 #1 substring$
-       duplicate$ "1" =
-         { pop$ bbl.st * }
-         { duplicate$ "2" =
-             { pop$ bbl.nd * }
-             { "3" =
-                 { bbl.rd * }
-                 { bbl.th * }
-               if$
-             }
-           if$
-          }
-       if$
-     }
-   if$
-}
-
-MACRO {acmcs} {"ACM Comput. Surv."}
-
-MACRO {acta} {"Acta Inf."}
-
-MACRO {cacm} {"Commun. ACM"}
-
-MACRO {ibmjrd} {"IBM J. Res. Dev."}
-
-MACRO {ibmsj} {"IBM Syst.~J."}
-
-MACRO {ieeese} {"IEEE Trans. Software Eng."}
-
-MACRO {ieeetc} {"IEEE Trans. Comput."}
-
-MACRO {ieeetcad}
- {"IEEE Trans. Comput. Aid. Des."}
-
-MACRO {ipl} {"Inf. Process. Lett."}
-
-MACRO {jacm} {"J.~ACM"}
-
-MACRO {jcss} {"J.~Comput. Syst. Sci."}
-
-MACRO {scp} {"Sci. Comput. Program."}
-
-MACRO {sicomp} {"SIAM J. Comput."}
-
-MACRO {tocs} {"ACM Trans. Comput. Syst."}
-
-MACRO {tods} {"ACM Trans. Database Syst."}
-
-MACRO {tog} {"ACM Trans. Graphic."}
-
-MACRO {toms} {"ACM Trans. Math. Software"}
-
-MACRO {toois} {"ACM Trans. Office Inf. Syst."}
-
-MACRO {toplas} {"ACM Trans. Progr. Lang. Syst."}
-
-MACRO {tcs} {"Theor. Comput. Sci."}
-
-FUNCTION {bibinfo.check}
-{ swap$
-  duplicate$ missing$
-    {
-      pop$ pop$
-      ""
-    }
-    { duplicate$ empty$
-        {
-          swap$ pop$
-        }
-        { swap$
-          pop$
-        }
-      if$
-    }
-  if$
-}
-FUNCTION {bibinfo.warn}
-{ swap$
-  duplicate$ missing$
-    {
-      swap$ "missing " swap$ * " in " * cite$ * warning$ pop$
-      ""
-    }
-    { duplicate$ empty$
-        {
-          swap$ "empty " swap$ * " in " * cite$ * warning$
-        }
-        { swap$
-          pop$
-        }
-      if$
-    }
-  if$
-}
-FUNCTION {format.eprint}
-{ eprint duplicate$ empty$
-    'skip$
-    { "\eprint"
-      archive empty$
-        'skip$
-        { "[" * archive * "]" * }
-      if$
-      "{" * swap$ * "}" *
-    }
-  if$
-}
-STRINGS  { bibinfo}
-INTEGERS { nameptr namesleft numnames }
-
-FUNCTION {format.names}
-{ 'bibinfo :=
-  duplicate$ empty$ 'skip$ {
-  's :=
-  "" 't :=
-  #1 'nameptr :=
-  s num.names$ 'numnames :=
-  numnames 'namesleft :=
-    { namesleft #0 > }
-    { s nameptr
-      duplicate$ #1 >
-        { "{f.~}{vv~}{ll}{, jj}" }
-        { "{vv~}{ll}{, f.}{, jj}" }
-      if$
-      format.name$
-      bibinfo bibinfo.check
-      't :=
-      nameptr #1 >
-        {
-          namesleft #1 >
-            { ", " * t * }
-            {
-              numnames #2 >
-                { "," * }
-                'skip$
-              if$
-              s nameptr "{ll}" format.name$ duplicate$ "others" =
-                { 't := }
-                { pop$ }
-              if$
-              t "others" =
-                {
-                  " " * bbl.etal *
-                }
-                {
-                  bbl.and
-                  space.word * t *
-                }
-              if$
-            }
-          if$
-        }
-        't
-      if$
-      nameptr #1 + 'nameptr :=
-      namesleft #1 - 'namesleft :=
-    }
-  while$
-  } if$
-}
-FUNCTION {format.names.ed}
-{
-  format.names
-}
-FUNCTION {format.key}
-{ empty$
-    { key field.or.null }
-    { "" }
-  if$
-}
-
-FUNCTION {format.authors}
-{ author "author" format.names
-}
-FUNCTION {get.bbl.editor}
-{ editor num.names$ #1 > 'bbl.editors 'bbl.editor if$ }
-
-FUNCTION {format.editors}
-{ editor "editor" format.names duplicate$ empty$ 'skip$
-    {
-      "," *
-      " " *
-      get.bbl.editor
-      capitalize
-   "(" swap$ * ")" *
-      *
-    }
-  if$
-}
-FUNCTION {format.book.pages}
-{ pages "pages" bibinfo.check
-  duplicate$ empty$ 'skip$
-    { " " * bbl.pages * }
-  if$
-}
-FUNCTION {format.doi}
-{ doi "doi" bibinfo.check
-  duplicate$ empty$ 'skip$
-    {
-      "\doi{" swap$ * "}" *
-    }
-  if$
-}
-FUNCTION {format.note}
-{
-  url empty$
-    'skip$
-    { "\urlprefix\url{" url * "}" * output }
-  if$
- note empty$
-    { "" }
-    { note #1 #1 substring$
-      duplicate$ "{" =
-        'skip$
-        { output.state mid.sentence =
-          { "l" }
-          { "u" }
-        if$
-        change.case$
-        }
-      if$
-      note #2 global.max$ substring$ * "note" bibinfo.check
-    }
-  if$
-}
-
-FUNCTION {format.title}
-{ title
-  duplicate$ empty$ 'skip$
-    { "t" change.case$ }
-  if$
-  "title" bibinfo.check
-}
-FUNCTION {format.full.names}
-{'s :=
- "" 't :=
-  #1 'nameptr :=
-  s num.names$ 'numnames :=
-  numnames 'namesleft :=
-    { namesleft #0 > }
-    { s nameptr
-      "{vv~}{ll}" format.name$
-      't :=
-      nameptr #1 >
-        {
-          namesleft #1 >
-            { ", " * t * }
-            {
-              s nameptr "{ll}" format.name$ duplicate$ "others" =
-                { 't := }
-                { pop$ }
-              if$
-              t "others" =
-                {
-                  " " * bbl.etal *
-                }
-                {
-                  numnames #2 >
-                    { "," * }
-                    'skip$
-                  if$
-                  bbl.and
-                  space.word * t *
-                }
-              if$
-            }
-          if$
-        }
-        't
-      if$
-      nameptr #1 + 'nameptr :=
-      namesleft #1 - 'namesleft :=
-    }
-  while$
-}
-
-FUNCTION {author.editor.key.full}
-{ author empty$
-    { editor empty$
-        { key empty$
-            { cite$ #1 #3 substring$ }
-            'key
-          if$
-        }
-        { editor format.full.names }
-      if$
-    }
-    { author format.full.names }
-  if$
-}
-
-FUNCTION {author.key.full}
-{ author empty$
-    { key empty$
-         { cite$ #1 #3 substring$ }
-          'key
-      if$
-    }
-    { author format.full.names }
-  if$
-}
-
-FUNCTION {editor.key.full}
-{ editor empty$
-    { key empty$
-         { cite$ #1 #3 substring$ }
-          'key
-      if$
-    }
-    { editor format.full.names }
-  if$
-}
-
-FUNCTION {make.full.names}
-{ type$ "book" =
-  type$ "inbook" =
-  or
-    'author.editor.key.full
-    { type$ "proceedings" =
-        'editor.key.full
-        'author.key.full
-      if$
-    }
-  if$
-}
-
-FUNCTION {output.bibitem}
-{ newline$
-  "\bibitem[{" write$
-  label write$
-  ")" make.full.names duplicate$ short.list =
-     { pop$ }
-     { * }
-   if$
-  "}]{" * write$
-  cite$ write$
-  "}" write$
-  newline$
-  ""
-  before.all 'output.state :=
-}
-
-FUNCTION {if.digit}
-{ duplicate$ "0" =
-  swap$ duplicate$ "1" =
-  swap$ duplicate$ "2" =
-  swap$ duplicate$ "3" =
-  swap$ duplicate$ "4" =
-  swap$ duplicate$ "5" =
-  swap$ duplicate$ "6" =
-  swap$ duplicate$ "7" =
-  swap$ duplicate$ "8" =
-  swap$ "9" = or or or or or or or or or
-}
-FUNCTION {n.separate}
-{ 't :=
-  ""
-  #0 'numnames :=
-  { t empty$ not }
-  { t #-1 #1 substring$ if.digit
-      { numnames #1 + 'numnames := }
-      { #0 'numnames := }
-    if$
-    t #-1 #1 substring$ swap$ *
-    t #-2 global.max$ substring$ 't :=
-    numnames #5 =
-      { duplicate$ #1 #2 substring$ swap$
-        #3 global.max$ substring$
-        "\," swap$ * *
-      }
-      'skip$
-    if$
-  }
-  while$
-}
-FUNCTION {n.dashify}
-{
-  n.separate
-  't :=
-  ""
-    { t empty$ not }
-    { t #1 #1 substring$ "-" =
-        { t #1 #2 substring$ "--" = not
-            { "--" *
-              t #2 global.max$ substring$ 't :=
-            }
-            {   { t #1 #1 substring$ "-" = }
-                { "-" *
-                  t #2 global.max$ substring$ 't :=
-                }
-              while$
-            }
-          if$
-        }
-        { t #1 #1 substring$ *
-          t #2 global.max$ substring$ 't :=
-        }
-      if$
-    }
-  while$
-}
-
-FUNCTION {word.in}
-{ "" }
-
-FUNCTION {format.date}
-{ year "year" bibinfo.check duplicate$ empty$
-    {
-      "empty year in " cite$ * "; set to ????" * warning$
-       pop$ "????"
-    }
-    'skip$
-  if$
-  extra.label *
-  before.all 'output.state :=
-  ", " swap$ *
-}
-FUNCTION {format.btitle}
-{ title "title" bibinfo.check
-  duplicate$ empty$ 'skip$
-    {
-      emphasize
-    }
-  if$
-}
-FUNCTION {either.or.check}
-{ empty$
-    'pop$
-    { "can't use both " swap$ * " fields in " * cite$ * warning$ }
-  if$
-}
-FUNCTION {format.bvolume}
-{ volume empty$
-    { "" }
-    { bbl.volume volume tie.or.space.prefix
-      "volume" bibinfo.check * *
-      series "series" bibinfo.check
-      duplicate$ empty$ 'pop$
-%%% NO ITALIC SERIES        { emphasize ", " * swap$ * }
-      {", " * swap$ * }
-      if$
-      "volume and number" number either.or.check
-    }
-  if$
-}
-FUNCTION {format.number.series}
-{ volume empty$
-    { number empty$
-        { series field.or.null }
-        { series empty$
-            { number "number" bibinfo.check }
-            { output.state mid.sentence =
-                { bbl.number }
-                { bbl.number capitalize }
-              if$
-              number tie.or.space.prefix "number" bibinfo.check * *
-              bbl.in space.word *
-              series "series" bibinfo.check *
-            }
-          if$
-        }
-      if$
-    }
-    { "" }
-  if$
-}
-FUNCTION {is.num}
-{ chr.to.int$
-  duplicate$ "0" chr.to.int$ < not
-  swap$ "9" chr.to.int$ > not and
-}
-
-FUNCTION {extract.num}
-{ duplicate$ 't :=
-  "" 's :=
-  { t empty$ not }
-  { t #1 #1 substring$
-    t #2 global.max$ substring$ 't :=
-    duplicate$ is.num
-      { s swap$ * 's := }
-      { pop$ "" 't := }
-    if$
-  }
-  while$
-  s empty$
-    'skip$
-    { pop$ s }
-  if$
-}
-
-FUNCTION {convert.edition}
-{ extract.num "l" change.case$ 's :=
-  s "first" = s "1" = or
-    { bbl.first 't := }
-    { s "second" = s "2" = or
-        { bbl.second 't := }
-        { s "third" = s "3" = or
-            { bbl.third 't := }
-            { s "fourth" = s "4" = or
-                { bbl.fourth 't := }
-                { s "fifth" = s "5" = or
-                    { bbl.fifth 't := }
-                    { s #1 #1 substring$ is.num
-                        { s eng.ord 't := }
-                        { edition 't := }
-                      if$
-                    }
-                  if$
-                }
-              if$
-            }
-          if$
-        }
-      if$
-    }
-  if$
-  t
-}
-
-FUNCTION {format.edition}
-{ edition duplicate$ empty$ 'skip$
-    {
-      convert.edition
-      output.state mid.sentence =
-        { "l" }
-        { "t" }
-      if$ change.case$
-      "edition" bibinfo.check
-      " " * bbl.edition *
-    }
-  if$
-}
-INTEGERS { multiresult }
-FUNCTION {multi.page.check}
-{ 't :=
-  #0 'multiresult :=
-    { multiresult not
-      t empty$ not
-      and
-    }
-    { t #1 #1 substring$
-      duplicate$ "-" =
-      swap$ duplicate$ "," =
-      swap$ "+" =
-      or or
-        { #1 'multiresult := }
-        { t #2 global.max$ substring$ 't := }
-      if$
-    }
-  while$
-  multiresult
-}
-FUNCTION {format.pages}
-{ pages duplicate$ empty$ 'skip$
-    { duplicate$ multi.page.check
-        {
-          n.dashify
-        }
-        {
-        }
-      if$
-      "pages" bibinfo.check
-    }
-  if$
-}
-FUNCTION {format.journal.pages}
-{ pages duplicate$ empty$ 'pop$
-    { swap$ duplicate$ empty$
-        { pop$ pop$ format.pages }
-        {
-          ", " *
-          swap$
-          n.dashify
-          "pages" bibinfo.check
-          *
-        }
-      if$
-    }
-  if$
-}
-FUNCTION {format.journal.eid}
-{ eid "eid" bibinfo.check
-  duplicate$ empty$ 'pop$
-    { swap$ duplicate$ empty$ 'skip$
-      {
-          ", " *
-      }
-      if$
-      swap$ *
-    }
-  if$
-}
-FUNCTION {format.vol.num.pages}
-{ volume field.or.null
-  duplicate$ empty$ 'skip$
-    {
-      "volume" bibinfo.check
-    }
-  if$
-  number "number" bibinfo.check duplicate$ empty$ 'skip$
-    {
-      swap$ duplicate$ empty$
-        { "there's a number but no volume in " cite$ * warning$ }
-        'skip$
-      if$
-      swap$
-      "~(" swap$ * ")" *
-    }
-  if$ *
-  bolden
-  eid empty$
-    { format.journal.pages }
-    { format.journal.eid }
-  if$
-}
-
-FUNCTION {format.chapter.pages}
-{ chapter empty$
-    'format.pages
-    { type empty$
-        { bbl.chapter }
-        { type "l" change.case$
-          "type" bibinfo.check
-        }
-      if$
-      chapter tie.or.space.prefix
-      "chapter" bibinfo.check
-      * *
-      pages empty$
-        'skip$
-        { ", " * format.pages * }
-      if$
-    }
-  if$
-}
-
-FUNCTION {format.booktitle}
-{
-  booktitle "booktitle" bibinfo.check
-  emphasize
-}
-FUNCTION {format.in.ed.booktitle}
-{ format.booktitle duplicate$ empty$ 'skip$
-    {
-      editor "editor" format.names.ed duplicate$ empty$ 'pop$
-        {
-          get.bbl.editor
-          swap$ "," *
-          " " * swap$ *
-          swap$
-          "," *
-          " " * swap$
-          * }
-      if$
-      word.in swap$ *
-    }
-  if$
-}
-FUNCTION {format.thesis.type}
-{ type duplicate$ empty$
-    'pop$
-    { swap$ pop$
-      "t" change.case$ "type" bibinfo.check
-    }
-  if$
-}
-FUNCTION {format.tr.number}
-{ number "number" bibinfo.check
-  type duplicate$ empty$
-    { pop$ bbl.techrep }
-    'skip$
-  if$
-  "type" bibinfo.check
-  swap$ duplicate$ empty$
-    { pop$ "t" change.case$ }
-    { tie.or.space.prefix * * }
-  if$
-}
-FUNCTION {format.article.crossref}
-{
-  word.in
-  " \cite{" * crossref * "}" *
-}
-FUNCTION {format.book.crossref}
-{ volume duplicate$ empty$
-    { "empty volume in " cite$ * "'s crossref of " * crossref * warning$
-      pop$ word.in
-    }
-    { bbl.volume
-      capitalize
-      swap$ tie.or.space.prefix "volume" bibinfo.check * * bbl.of space.word *
-    }
-  if$
-  " \cite{" * crossref * "}" *
-}
-FUNCTION {format.incoll.inproc.crossref}
-{
-  word.in
-  " \cite{" * crossref * "}" *
-}
-FUNCTION {format.org.or.pub}
-{ 't :=
-  ""
-  address empty$ t empty$ and
-    'skip$
-    {
-      t empty$
-        { address "address" bibinfo.check *
-        }
-        { t *
-          address empty$
-            'skip$
-            { ", " * address "address" bibinfo.check * }
-          if$
-        }
-      if$
-    }
-  if$
-}
-FUNCTION {format.publisher.address}
-{ publisher "publisher" bibinfo.warn format.org.or.pub
-}
-
-FUNCTION {format.organization.address}
-{ organization "organization" bibinfo.check format.org.or.pub
-}
-
-STRINGS {oldname}
-
-FUNCTION {name.or.dash}
-{ 's :=
-   oldname empty$
-     { s 'oldname := s }
-     { s oldname =
-         { "---{}---{}---" }
-         { s 'oldname := s }
-       if$
-     }
-   if$
-}
-
-FUNCTION {article}
-{ output.bibitem
-  format.authors "author" output.check
-  author format.key output
-  name.or.dash
-  format.date "year" output.check
-  date.block
-  format.title "title" output.check
-  new.sentence
-  crossref missing$
-    {
-      journal
-      "journal" bibinfo.check
-      emphasize
-      "journal" output.check
-      format.vol.num.pages output
-  format.doi output
-    }
-    { format.article.crossref output.nonnull
-      format.pages output
-    }
-  if$
-  format.note output
-  format.eprint output
-  fin.entry
-}
-FUNCTION {book}
-{ output.bibitem
-  author empty$
-    { format.editors "author and editor" output.check
-      editor format.key output
-      add.blank
-      name.or.dash
-    }
-    { format.authors output.nonnull
-      name.or.dash
-      crossref missing$
-        { "author and editor" editor either.or.check }
-        'skip$
-      if$
-    }
-  if$
-  format.date "year" output.check
-  date.block
-  format.btitle "title" output.check
-  crossref missing$
-    { format.bvolume output
-  new.sentence
-      format.edition output
-      format.number.series output
-      format.publisher.address output
-    }
-    {
-  new.sentence
-      format.book.crossref output.nonnull
-    }
-  if$
-  format.book.pages output
-  format.doi output
-  format.note output
-  format.eprint output
-  fin.entry
-}
-FUNCTION {booklet}
-{ output.bibitem
-  format.authors output
-  author format.key output
-  name.or.dash
-  format.date "year" output.check
-  date.block
-  format.title "title" output.check
-  new.sentence
-  howpublished "howpublished" bibinfo.check output
-  address "address" bibinfo.check output
-  format.book.pages output
-  format.doi output
-  format.note output
-  format.eprint output
-  fin.entry
-}
-
-FUNCTION {inbook}
-{ output.bibitem
-  author empty$
-    { format.editors "author and editor" output.check
-      editor format.key output
-      name.or.dash
-    }
-    { format.authors output.nonnull
-      name.or.dash
-      crossref missing$
-        { "author and editor" editor either.or.check }
-        'skip$
-      if$
-    }
-  if$
-  format.date "year" output.check
-  date.block
-  format.btitle "title" output.check
-  crossref missing$
-    {
-      format.bvolume output
-      format.chapter.pages "chapter and pages" output.check
-  new.sentence
-      format.edition output
-      format.number.series output
-      format.publisher.address output
-    }
-    {
-      format.chapter.pages "chapter and pages" output.check
-  new.sentence
-      format.book.crossref output.nonnull
-    }
-  if$
-  format.doi output
-  format.note output
-  format.eprint output
-  fin.entry
-}
-
-FUNCTION {incollection}
-{ output.bibitem
-  format.authors "author" output.check
-  author format.key output
-  name.or.dash
-  format.date "year" output.check
-  date.block
-  format.title "title" output.check
-  new.sentence
-  crossref missing$
-    { format.in.ed.booktitle "booktitle" output.check
-      format.publisher.address output      
-      format.bvolume output
-      format.number.series output
-      format.edition output
-      format.chapter.pages output
-    }
-    { format.incoll.inproc.crossref output.nonnull
-      format.chapter.pages output
-    }
-  if$
-  format.doi output
-  format.note output
-  format.eprint output
-  fin.entry
-}
-FUNCTION {inproceedings}
-{ output.bibitem
-  format.authors "author" output.check
-  author format.key output
-  name.or.dash
-  format.date "year" output.check
-  date.block
-  format.title "title" output.check
-  new.sentence
-  crossref missing$
-    { format.in.ed.booktitle "booktitle" output.check
-      publisher empty$
-        { format.organization.address output }
-        { organization "organization" bibinfo.check output
-          format.publisher.address output
-        }
-      if$
-      format.bvolume output
-      format.pages output
-      format.number.series output
-      howpublished "howpublished" bibinfo.check output
-    }
-    { format.incoll.inproc.crossref output.nonnull
-      format.pages output
-    }
-  if$
-  format.doi output
-  format.note output
-  format.eprint output
-  fin.entry
-}
-FUNCTION {conference} { inproceedings }
-FUNCTION {manual}
-{ output.bibitem
-  format.authors output
-  author format.key output
-  name.or.dash
-  format.date "year" output.check
-  date.block
-  format.btitle "title" output.check
-  new.sentence
-  organization "organization" bibinfo.check output
-  address "address" bibinfo.check output
-  format.edition output
-  format.doi output
-  format.note output
-  format.eprint output
-  fin.entry
-}
-
-FUNCTION {mastersthesis}
-{ output.bibitem
-  format.authors "author" output.check
-  author format.key output
-  name.or.dash
-  format.date "year" output.check
-  date.block
-  format.title
-  "title" output.check
-  new.sentence
-  bbl.mthesis format.thesis.type output.nonnull
-  department "department" bibinfo.warn output
-  school "school" bibinfo.warn output
-  address "address" bibinfo.check output
-  format.doi output
-  format.note output
-  format.eprint output
-  fin.entry
-}
-
-FUNCTION {misc}
-{ output.bibitem
-  format.authors output
-  author format.key output
-  name.or.dash
-  format.date "year" output.check
-  date.block
-  format.title output
-  new.sentence
-  howpublished "howpublished" bibinfo.check output
-  format.doi output
-  format.note output
-  format.eprint output
-  fin.entry
-}
-FUNCTION {phdthesis}
-{ output.bibitem
-  format.authors "author" output.check
-  author format.key output
-  name.or.dash
-  format.date "year" output.check
-  date.block
-  format.title
-  "title" output.check
-  new.sentence
-  bbl.phdthesis format.thesis.type output.nonnull
-  school "school" bibinfo.warn output
-  address "address" bibinfo.check output
-  format.doi output
-  format.note output
-  format.eprint output
-  fin.entry
-}
-
-FUNCTION {proceedings}
-{ output.bibitem
-  format.editors output
-  editor format.key output
-  name.or.dash
-  format.date "year" output.check
-  date.block
-  format.btitle "title" output.check
-  format.bvolume output
-  format.number.series output
-  publisher empty$
-    { format.organization.address output }
-    { organization "organization" bibinfo.check output
-      format.publisher.address output
-    }
-  if$
-  format.doi output
-  format.note output
-  format.eprint output
-  fin.entry
-}
-
-FUNCTION {techreport}
-{ output.bibitem
-  format.authors "author" output.check
-  author format.key output
-  name.or.dash
-  format.date "year" output.check
-  date.block
-  format.title
-  "title" output.check
-  new.sentence
-  format.tr.number output.nonnull
-  institution "institution" bibinfo.warn output
-  address "address" bibinfo.check output
-  format.doi output
-  format.note output
-  format.eprint output
-  fin.entry
-}
-
-FUNCTION {unpublished}
-{ output.bibitem
-  format.authors "author" output.check
-  author format.key output
-  name.or.dash
-  format.date "year" output.check
-  date.block
-  format.title "title" output.check
-  format.doi output
-  format.note "note" output.check
-  format.eprint output
-  fin.entry
-}
-
-FUNCTION {default.type} { misc }
-READ
-FUNCTION {sortify}
-{ purify$
-  "l" change.case$
-}
-INTEGERS { len }
-FUNCTION {chop.word}
-{ 's :=
-  'len :=
-  s #1 len substring$ =
-    { s len #1 + global.max$ substring$ }
-    's
-  if$
-}
-FUNCTION {format.lab.names}
-{ 's :=
-  "" 't :=
-  s #1 "{vv~}{ll}" format.name$
-  s num.names$ duplicate$
-  #2 >
-    { pop$
-      " " * bbl.etal *
-    }
-    { #2 <
-        'skip$
-        { s #2 "{ff }{vv }{ll}{ jj}" format.name$ "others" =
-            {
-              " " * bbl.etal *
-            }
-            { bbl.and space.word * s #2 "{vv~}{ll}" format.name$
-              * }
-          if$
-        }
-      if$
-    }
-  if$
-}
-
-FUNCTION {author.key.label}
-{ author empty$
-    { key empty$
-        { cite$ #1 #3 substring$ }
-        'key
-      if$
-    }
-    { author format.lab.names }
-  if$
-}
-
-FUNCTION {author.editor.key.label}
-{ author empty$
-    { editor empty$
-        { key empty$
-            { cite$ #1 #3 substring$ }
-            'key
-          if$
-        }
-        { editor format.lab.names }
-      if$
-    }
-    { author format.lab.names }
-  if$
-}
-
-FUNCTION {editor.key.label}
-{ editor empty$
-    { key empty$
-        { cite$ #1 #3 substring$ }
-        'key
-      if$
-    }
-    { editor format.lab.names }
-  if$
-}
-
-FUNCTION {calc.short.authors}
-{ type$ "book" =
-  type$ "inbook" =
-  or
-    'author.editor.key.label
-    { type$ "proceedings" =
-        'editor.key.label
-        'author.key.label
-      if$
-    }
-  if$
-  'short.list :=
-}
-
-FUNCTION {calc.label}
-{ calc.short.authors
-  short.list
-  "("
-  *
-  year duplicate$ empty$
-     { pop$ "????" }
-     { purify$ #-1 #4 substring$ }
-  if$
-  *
-  'label :=
-}
-
-FUNCTION {sort.format.names}
-{ 's :=
-  #1 'nameptr :=
-  ""
-  s num.names$ 'numnames :=
-  numnames 'namesleft :=
-    { namesleft #0 > }
-    { s nameptr
-      "{vv{ } }{ll{ }}{  f{ }}{  jj{ }}"
-      format.name$ 't :=
-      nameptr #1 >
-        {
-          "   "  *
-          namesleft #1 = t "others" = and
-            { "zzzzz" * }
-            { t sortify * }
-          if$
-        }
-        { t sortify * }
-      if$
-      nameptr #1 + 'nameptr :=
-      namesleft #1 - 'namesleft :=
-    }
-  while$
-}
-
-FUNCTION {sort.format.title}
-{ 't :=
-  "A " #2
-    "An " #3
-      "The " #4 t chop.word
-    chop.word
-  chop.word
-  sortify
-  #1 global.max$ substring$
-}
-FUNCTION {author.sort}
-{ author empty$
-    { key empty$
-        { "to sort, need author or key in " cite$ * warning$
-          ""
-        }
-        { key sortify }
-      if$
-    }
-    { author sort.format.names }
-  if$
-}
-FUNCTION {author.editor.sort}
-{ author empty$
-    { editor empty$
-        { key empty$
-            { "to sort, need author, editor, or key in " cite$ * warning$
-              ""
-            }
-            { key sortify }
-          if$
-        }
-        { editor sort.format.names }
-      if$
-    }
-    { author sort.format.names }
-  if$
-}
-FUNCTION {editor.sort}
-{ editor empty$
-    { key empty$
-        { "to sort, need editor or key in " cite$ * warning$
-          ""
-        }
-        { key sortify }
-      if$
-    }
-    { editor sort.format.names }
-  if$
-}
-FUNCTION {presort}
-{ calc.label
-  label sortify
-  "    "
-  *
-  type$ "book" =
-  type$ "inbook" =
-  or
-    'author.editor.sort
-    { type$ "proceedings" =
-        'editor.sort
-        'author.sort
-      if$
-    }
-  if$
-  #1 entry.max$ substring$
-  'sort.label :=
-  sort.label
-  *
-  "    "
-  *
-  title field.or.null
-  sort.format.title
-  *
-  #1 entry.max$ substring$
-  'sort.key$ :=
-}
-
-ITERATE {presort}
-SORT
-STRINGS { last.label next.extra }
-INTEGERS { last.extra.num number.label }
-FUNCTION {initialize.extra.label.stuff}
-{ #0 int.to.chr$ 'last.label :=
-  "" 'next.extra :=
-  #0 'last.extra.num :=
-  #0 'number.label :=
-}
-FUNCTION {forward.pass}
-{ last.label label =
-    { last.extra.num #1 + 'last.extra.num :=
-      last.extra.num int.to.chr$ 'extra.label :=
-    }
-    { "a" chr.to.int$ 'last.extra.num :=
-      "" 'extra.label :=
-      label 'last.label :=
-    }
-  if$
-  number.label #1 + 'number.label :=
-}
-FUNCTION {reverse.pass}
-{ next.extra "b" =
-    { "a" 'extra.label := }
-    'skip$
-  if$
-  extra.label 'next.extra :=
-  extra.label
-  duplicate$ empty$
-    'skip$
-    { "{\natexlab{" swap$ * "}}" * }
-  if$
-  'extra.label :=
-  label extra.label * 'label :=
-}
-EXECUTE {initialize.extra.label.stuff}
-ITERATE {forward.pass}
-REVERSE {reverse.pass}
-FUNCTION {bib.sort.order}
-{ sort.label
-  "    "
-  *
-  year field.or.null sortify
-  *
-  "    "
-  *
-  title field.or.null
-  sort.format.title
-  *
-  #1 entry.max$ substring$
-  'sort.key$ :=
-}
-ITERATE {bib.sort.order}
-SORT
-FUNCTION {begin.bib}
-{ preamble$ empty$
-    'skip$
-    { preamble$ write$ newline$ }
-  if$
-  "\begin{thebibliography}{" number.label int.to.str$ * "}" *
-  write$ newline$
-  "\providecommand{\natexlab}[1]{#1}"
-  write$ newline$
-  "\providecommand{\url}[1]{\texttt{#1}}"
-  write$ newline$
-  "\providecommand{\urlprefix}{URL }"
-  write$ newline$
-  "\expandafter\ifx\csname urlstyle\endcsname\relax"
-  write$ newline$
-  "  \providecommand{\doi}[1]{doi:\discretionary{}{}{}#1}\else"
-  write$ newline$
-  "  \providecommand{\doi}{doi:\discretionary{}{}{}\begingroup \urlstyle{rm}\Url}\fi"
-  write$ newline$
-  "\providecommand{\eprint}[2][]{\url{#2}}"
-  write$ newline$
-}
-EXECUTE {begin.bib}
-EXECUTE {init.state.consts}
-ITERATE {call.type$}
-FUNCTION {end.bib}
-{ newline$
-  "\end{thebibliography}" write$ newline$
-}
-EXECUTE {end.bib}
-%% End of customized bst file
-%%
-%% End of file `ametsoc7.bst'.
Index: anches/2015/nemo_v3_6_STABLE/DOC/TexFiles/clean.sh
===================================================================
--- /branches/2015/nemo_v3_6_STABLE/DOC/TexFiles/clean.sh	(revision 6991)
+++ 	(revision )
@@ -1,2 +1,0 @@
-rm -f $( ls -1 NEMO_book.* | egrep -v "(tex|pdf)" ) *mpgraph*
-rm -f Chapters/*.aux Chapters/*.log
Index: anches/2015/nemo_v3_6_STABLE/DOC/TexFiles/math_abbrev.sty
===================================================================
--- /branches/2015/nemo_v3_6_STABLE/DOC/TexFiles/math_abbrev.sty	(revision 6991)
+++ 	(revision )
@@ -1,32 +1,0 @@
-\def\half{\textstyle\frac{1}{2}}
-\def\hhalf{\scriptstyle\frac{1}{2}}
-\def\quarter{\textstyle\frac{1}{4}}
-\def\qquarter{\scriptstyle\frac{1}{4}}
-\def\squarter{\sfrac{1}{4}}
-\def\stwelfth{\sfrac{1}{12}}
-\def\sthirtysixth{\sfrac{1}{36}}
-% \newcommand{\grad}{\boldsymbol{\nabla}}
-% \newcommand{\gradh}{\boldsymbol{\nabla}_h}
-\newcommand{\grad}{\nabla}
-\newcommand{\gradh}{\nabla_h}
-\def\bgamma\boldsymbol{\gamma}
-\def\rdt{\Delta t}
-\newcommand{\ew}[3]{{e_{3#1}}_{\,#2}^{\,#3} }
-\newcommand{\vect}[1]{\ensuremath{\mathbf{#1}}} % for vectors                                % non-italic bold
-\newcommand{\Div}{\grad\cdot}
-% \newcommand{\curl}{\boldsymbol{\nabla} \times} % for curl
-\newcommand{\curl}{\nabla \times} % for curl
-\newcommand{\pd}[2][]{\frac{\partial #1}{\partial #2}}
-\def\deg{\degres}                            % degrees  (NB: \r{} can % % also be used)
-\newcommand{\alpbet} {\left(\alpha / \beta \right)} 	% alpha/beta  for slp computation
-\newcommand{\triad}[6][]{\ensuremath{{}_{#2}^{#3}{\mathbb{#4}_{#1}}_{#5}^{\,#6}}}
-\newcommand{\triadd}[5]{\ensuremath{{}_{#1}^{#2}{\mathbb{#3}}_{#4}^{\,#5}}}
-\newcommand{\triadt}[5]{\ensuremath{{}_{#1}^{#2}{\tilde{\mathbb{#3}}}_{#4}^{\,#5}}}
-\newcommand{\rtriad}[2][]{\ensuremath{\triad[#1]{i}{k}{#2}{i_p}{k_p}}}
-\newcommand{\rtriadt}[1]{\ensuremath{\triadt{i}{k}{#1}{i_p}{k_p}}}
-\newcommand{\Alts}{{A}}
-\newcommand{\Alt}{{A^{lT}}}
-\newcommand{\rMLt}[1][i]{\tilde{r}_{\mathrm{ML}\,#1}}
-\newcommand{\rML}[1][i]{r_{\mathrm{ML}\,#1}}
-\newcommand{\mygstrut}[2]{\rule[#1 em]{0pt}{#2 em}}
-\newcommand{\mystrut}{\rule[-.9 em]{0pt}{1.79 em}}
Index: anches/2015/nemo_v3_6_STABLE/DOC/TexFiles/namcfg_orca1
===================================================================
--- /branches/2015/nemo_v3_6_STABLE/DOC/TexFiles/namcfg_orca1	(revision 6991)
+++ 	(revision )
@@ -1,12 +1,0 @@
-!-----------------------------------------------------------------------
-&namcfg        !   parameters of the configuration
-!-----------------------------------------------------------------------
-   cp_cfg      =  "orca"               !  name of the configuration
-   jp_cfg      =       1               !  resolution of the configuration
-   jpidta      =     362               !  1st lateral dimension ( >= jpi )
-   jpjdta      =     292               !  2nd    "         "    ( >= jpj )
-   jpkdta      =      75               !  number of levels      ( >= jpk )
-   jpiglo      =     362               !  1st dimension of global domain --> i =jpidta
-   jpjglo      =     292               !  2nd    -                  -    --> j  =jpjdta
-   jperio      =       6               !  lateral cond. type (between 0 and 6)
-   ln_use_jattr = .true.               !  use (T) the file attribute: open_ocean_jstart if present
Index: anches/2015/nemo_v3_6_STABLE/DOC/TexFiles/namelist_split.sh
===================================================================
--- /branches/2015/nemo_v3_6_STABLE/DOC/TexFiles/namelist_split.sh	(revision 6991)
+++ 	(revision )
@@ -1,247 +1,0 @@
-#! /bin/sh
-#
-#       usage for NEMO doc to create an update of the Namelist directory :
-# 1- delete the existing directory (You can also choose to save it somewhere) 
-#    rm -rf Namelist
-# 2- create the updated Namelist directory from the SHARED/namelist_ref :
-#    ./namelist_split.sh -i ../../NEMOGCM/CONFIG/SHARED/namelist_ref -o Namelist
-#
-# .. _namelist_split.sh:
-#
-# =================
-# namelist_split.sh
-# =================
-#
-# ----------------
-# split a namelist
-# ----------------
-#
-# SYNOPSIS
-# ========
-#
-# .. code-block:: bash
-#
-#    namelist_split.sh -i namelist -o dirout [-n]
-#
-# DESCRIPTION
-# ===========
-#
-# Split a namelist file (NEMO convention syntax) given in parameter
-# into files in a given output directory.
-#
-# .. option:: -i <input file (namelist)>
-# .. option:: -o <output directory>
-# .. option:: -n <numbered output files>
-#
-# Each file of the output directory is named after the *block* it contains.
-#
-# We assume here that the input file is written with this pattern of block:
-#
-# .. parsed-literal::
-#
-#    !---------------
-#    &nameblock
-#    !---------------
-#    var1 = val1
-#    ...
-#    varn = valn
-#    /
-#
-# If ``-n`` option is used, files in the directory output are named after
-# the number of the block it contains and the name of this block. This might
-# be useful to recombine blocks in the same order.
-#
-# EXAMPLES
-# ========
-#
-# To split the namelist NEMO ORCA2_LIM experiment 00 if you are in NEMO
-# working space :
-#
-# .. code-block:: bash
-#
-#    namelist_split.sh -i CONFIG/ORCA2_LIM/EXP00/namelist -o /tmp/EXP00_namelist_split/
-#
-# To split the namelist under data directory with numbered files:
-#
-# .. code-block:: bash
-#
-#    namelist_split.sh -i ./data/namelist -o /tmp/EXP00_namelist_split/ -n
-#
-# Check can be made by concatenation of files in output directory if ``-n``
-# option have been used and comparison with original file :
-#
-# .. code-block:: bash
-#
-#    cat /tmp/EXP00_namelist_split/b???_* > /tmp/EXP00_namelist_rebuild
-#    sdiff -w80 ./data/namelist /tmp/EXP00_namelist_rebuild
-#
-# Output contains lines which are before the first block, after the last
-# block and lines between blocks.
-#
-# EVOLUTIONS
-# ==========
-#
-# $Id$
-#
-# - fplod 2008-08-11T08:56:44Z aedon.locean-ipsl.upmc.fr (Darwin)
-#
-#   * commentaires dans ce fichier en reStructuredText
-#     cf. reStructuredText_ and Docutils_
-#
-# .. _reStructuredText: http://docutils.sourceforge.net/rst.html
-# .. _Docutils: http://docutils.sourceforge.net/
-#
-# - fplod 2008-07-22T12:41:04Z aedon.locean-ipsl.upmc.fr (Darwin)
-#
-#   * creation with test on
-#     http://forge.ipsl.jussieu.fr/nemo/browser/trunk/CONFIG/ORCA2_LIM/EXP00/namelist revision 1151
-#-
-#
-system=$(uname)
-case "${system}" in
-    AIX|IRIX64)
-        echo " www : no specific posix checking"
-    ;;
-    *)
-        set -o posix
-    ;;
-esac
-unset system
-#
-command=$(basename ${0})
-log_date=$(date -u +"%Y%m%dT%H%M%SZ")
-#
-usage=" Usage : ${command} -i namelist -o dirout [-n]"
-#
-# default
-blocknum=0
-#
-minargcount=4
-if [ ${#} -lt ${minargcount} ]
-then
-    echo "eee : not enough arguments"
-    echo "${usage}"
-    exit 1
-fi
-#
-while [ ${#} -gt 0 ]
-do
-    case ${1} in
-        -i)
-            filein=${2}
-            shift
-        ;;
-        -o)
-            dirout=${2}
-            shift
-        ;;
-        -h)
-            echo "${usage}"
-            exit 0
-        ;;
-        -n)
-            blocknum=1
-        ;;
-        *)
-            # anything else
-            echo "eee : unknown option ${1}"
-            echo "eee : ${usage}"
-            exit 1
-        ;;
-    esac
-    # next flag
-    shift
-done
-unset usage
-#
-set -u
-#
-# check for filein
-if [ ! -r ${filein} ]
-then
-    echo "eee : ${filein} not accessible"
-    exit 1
-fi
-#
-# check for dirout
-# the idea is to prevent unwanted overwrite
-if [ -d ${dirout} ]
-then
-    echo "eee : ${dirout} already exist"
-    exit 1
-else
-    mkdir -p ${dirout}
-    if [ ${?} -ne 0 ]
-    then
-        echo "eee : cannot create ${dirout}"
-        exit 1
-    fi
-fi
-#
-# loop on each line of ${filein} ie the namelist to be split
-fileout=/dev/null
-begin=0
-if [ ${blocknum} -eq 1 ]
-then
-    iblock=0
-fi
-nbline=$(wc -l ${filein} | awk '{print $1}')
-il=1
-while [ ${il} -le ${nbline} ]
-do
-    line=$(sed -ne "${il},${il}p" ${filein})
-    # if current line start with "&", we can establish the name of output file
-    echo ${line} | grep -q "^&"
-    if [ ${?} -eq 0 ]
-    then
-        begin=1
-        # the form of this line is "&block   !"
-        block=${line#&}
-        block=${block%% *}
-        echo "iii : detection of the beginning of ${block}"
-        if [ ${blocknum} -eq 1 ]
-        then
-            iblock=$(( ${iblock} + 1))
-            fileout=${dirout}/b$(echo ${iblock} | awk '{printf "%3.3d", $1}')_${block}
-        else
-            fileout="${dirout}/${block}"
-        fi
-        # check for ${fileout}
-        if [ -f ${fileout} ]
-        then
-            echo "eee : ${fileout} already exists"
-            exit 1
-        fi
-        # write the previous line and the current line
-        echo "${memoline}" > ${fileout}
-        echo "${line}" >> ${fileout}
-    fi
-    # if current line contains "/" there will be no more lines to put in fileout
-    echo ${line} | grep -q "^/$"
-    if [ ${?} -eq 0 ]
-    then
-        echo "iii : detection of the end of ${block}"
-        echo "${line}" >> ${fileout}
-        fileout="/dev/null"
-    fi
-    # if current line is between "&" and "/", it should be written in fileout
-    # if current line is before the first &, it won't be written
-    if [ "${fileout}" != "/dev/null" ]
-    then
-        if [ ${begin} -eq 0 ]
-        then
-            echo "${line}" >> ${fileout}
-        fi
-    fi
-    # keep memory of this current line to use it if the next one is the
-    # beginning of a block
-    memoline=${line}
-    begin=0
-    # next line
-    il=$(( ${il} + 1 ))
-done
-#
-echo "iii : ${filein} is split in ${dirout}"
-#
-# end
-exit 0
Index: /branches/2015/nemo_v3_6_STABLE/DOC/clean.sh
===================================================================
--- /branches/2015/nemo_v3_6_STABLE/DOC/clean.sh	(revision 6992)
+++ /branches/2015/nemo_v3_6_STABLE/DOC/clean.sh	(revision 6992)
@@ -0,0 +1,2 @@
+rm -f $( ls -1 NEMO_book.* | egrep -v "(tex|pdf)" ) *mpgraph*
+rm -f Chapters/*.aux Chapters/*.log
Index: /branches/2015/nemo_v3_6_STABLE/DOC/namelist_split.sh
===================================================================
--- /branches/2015/nemo_v3_6_STABLE/DOC/namelist_split.sh	(revision 6992)
+++ /branches/2015/nemo_v3_6_STABLE/DOC/namelist_split.sh	(revision 6992)
@@ -0,0 +1,247 @@
+#! /bin/sh
+#
+#       usage for NEMO doc to create an update of the Namelist directory :
+# 1- delete the existing directory (You can also choose to save it somewhere) 
+#    rm -rf Namelist
+# 2- create the updated Namelist directory from the SHARED/namelist_ref :
+#    ./namelist_split.sh -i ../../NEMOGCM/CONFIG/SHARED/namelist_ref -o Namelist
+#
+# .. _namelist_split.sh:
+#
+# =================
+# namelist_split.sh
+# =================
+#
+# ----------------
+# split a namelist
+# ----------------
+#
+# SYNOPSIS
+# ========
+#
+# .. code-block:: bash
+#
+#    namelist_split.sh -i namelist -o dirout [-n]
+#
+# DESCRIPTION
+# ===========
+#
+# Split a namelist file (NEMO convention syntax) given in parameter
+# into files in a given output directory.
+#
+# .. option:: -i <input file (namelist)>
+# .. option:: -o <output directory>
+# .. option:: -n <numbered output files>
+#
+# Each file of the output directory is named after the *block* it contains.
+#
+# We assume here that the input file is written with this pattern of block:
+#
+# .. parsed-literal::
+#
+#    !---------------
+#    &nameblock
+#    !---------------
+#    var1 = val1
+#    ...
+#    varn = valn
+#    /
+#
+# If ``-n`` option is used, files in the directory output are named after
+# the number of the block it contains and the name of this block. This might
+# be useful to recombine blocks in the same order.
+#
+# EXAMPLES
+# ========
+#
+# To split the namelist NEMO ORCA2_LIM experiment 00 if you are in NEMO
+# working space :
+#
+# .. code-block:: bash
+#
+#    namelist_split.sh -i CONFIG/ORCA2_LIM/EXP00/namelist -o /tmp/EXP00_namelist_split/
+#
+# To split the namelist under data directory with numbered files:
+#
+# .. code-block:: bash
+#
+#    namelist_split.sh -i ./data/namelist -o /tmp/EXP00_namelist_split/ -n
+#
+# Check can be made by concatenation of files in output directory if ``-n``
+# option have been used and comparison with original file :
+#
+# .. code-block:: bash
+#
+#    cat /tmp/EXP00_namelist_split/b???_* > /tmp/EXP00_namelist_rebuild
+#    sdiff -w80 ./data/namelist /tmp/EXP00_namelist_rebuild
+#
+# Output contains lines which are before the first block, after the last
+# block and lines between blocks.
+#
+# EVOLUTIONS
+# ==========
+#
+# $Id$
+#
+# - fplod 2008-08-11T08:56:44Z aedon.locean-ipsl.upmc.fr (Darwin)
+#
+#   * commentaires dans ce fichier en reStructuredText
+#     cf. reStructuredText_ and Docutils_
+#
+# .. _reStructuredText: http://docutils.sourceforge.net/rst.html
+# .. _Docutils: http://docutils.sourceforge.net/
+#
+# - fplod 2008-07-22T12:41:04Z aedon.locean-ipsl.upmc.fr (Darwin)
+#
+#   * creation with test on
+#     http://forge.ipsl.jussieu.fr/nemo/browser/trunk/CONFIG/ORCA2_LIM/EXP00/namelist revision 1151
+#-
+#
+system=$(uname)
+case "${system}" in
+    AIX|IRIX64)
+        echo " www : no specific posix checking"
+    ;;
+    *)
+        set -o posix
+    ;;
+esac
+unset system
+#
+command=$(basename ${0})
+log_date=$(date -u +"%Y%m%dT%H%M%SZ")
+#
+usage=" Usage : ${command} -i namelist -o dirout [-n]"
+#
+# default
+blocknum=0
+#
+minargcount=4
+if [ ${#} -lt ${minargcount} ]
+then
+    echo "eee : not enough arguments"
+    echo "${usage}"
+    exit 1
+fi
+#
+while [ ${#} -gt 0 ]
+do
+    case ${1} in
+        -i)
+            filein=${2}
+            shift
+        ;;
+        -o)
+            dirout=${2}
+            shift
+        ;;
+        -h)
+            echo "${usage}"
+            exit 0
+        ;;
+        -n)
+            blocknum=1
+        ;;
+        *)
+            # anything else
+            echo "eee : unknown option ${1}"
+            echo "eee : ${usage}"
+            exit 1
+        ;;
+    esac
+    # next flag
+    shift
+done
+unset usage
+#
+set -u
+#
+# check for filein
+if [ ! -r ${filein} ]
+then
+    echo "eee : ${filein} not accessible"
+    exit 1
+fi
+#
+# check for dirout
+# the idea is to prevent unwanted overwrite
+if [ -d ${dirout} ]
+then
+    echo "eee : ${dirout} already exist"
+    exit 1
+else
+    mkdir -p ${dirout}
+    if [ ${?} -ne 0 ]
+    then
+        echo "eee : cannot create ${dirout}"
+        exit 1
+    fi
+fi
+#
+# loop on each line of ${filein} ie the namelist to be split
+fileout=/dev/null
+begin=0
+if [ ${blocknum} -eq 1 ]
+then
+    iblock=0
+fi
+nbline=$(wc -l ${filein} | awk '{print $1}')
+il=1
+while [ ${il} -le ${nbline} ]
+do
+    line=$(sed -ne "${il},${il}p" ${filein})
+    # if current line start with "&", we can establish the name of output file
+    echo ${line} | grep -q "^&"
+    if [ ${?} -eq 0 ]
+    then
+        begin=1
+        # the form of this line is "&block   !"
+        block=${line#&}
+        block=${block%% *}
+        echo "iii : detection of the beginning of ${block}"
+        if [ ${blocknum} -eq 1 ]
+        then
+            iblock=$(( ${iblock} + 1))
+            fileout=${dirout}/b$(echo ${iblock} | awk '{printf "%3.3d", $1}')_${block}
+        else
+            fileout="${dirout}/${block}"
+        fi
+        # check for ${fileout}
+        if [ -f ${fileout} ]
+        then
+            echo "eee : ${fileout} already exists"
+            exit 1
+        fi
+        # write the previous line and the current line
+        echo "${memoline}" > ${fileout}
+        echo "${line}" >> ${fileout}
+    fi
+    # if current line contains "/" there will be no more lines to put in fileout
+    echo ${line} | grep -q "^/$"
+    if [ ${?} -eq 0 ]
+    then
+        echo "iii : detection of the end of ${block}"
+        echo "${line}" >> ${fileout}
+        fileout="/dev/null"
+    fi
+    # if current line is between "&" and "/", it should be written in fileout
+    # if current line is before the first &, it won't be written
+    if [ "${fileout}" != "/dev/null" ]
+    then
+        if [ ${begin} -eq 0 ]
+        then
+            echo "${line}" >> ${fileout}
+        fi
+    fi
+    # keep memory of this current line to use it if the next one is the
+    # beginning of a block
+    memoline=${line}
+    begin=0
+    # next line
+    il=$(( ${il} + 1 ))
+done
+#
+echo "iii : ${filein} is split in ${dirout}"
+#
+# end
+exit 0
