Changeset 6992 for branches/2015/nemo_v3_6_STABLE/DOC/NEMO_book.tex
- Timestamp:
- 2016-10-05T14:07:19+02:00 (8 years ago)
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- 1 edited
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branches/2015/nemo_v3_6_STABLE/DOC/NEMO_book.tex (modified) (6 diffs)
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branches/2015/nemo_v3_6_STABLE/DOC/NEMO_book.tex
r6275 r6992 4 4 % (C) Xavier Perseguers 2002 - xavier.perseguers@epfl.ch 5 5 6 \documentclass[a4paper,11pt]{book} 7 %\documentclass[a4paper,11pt,makeidx]{book} <== may need this to generate index 6 % ================================================================ 7 % PREAMBLE 8 % ================================================================ 8 9 9 % makeindex NEMO_book <== to regenerate the index 10 % bibtex NEMO_book <== to generate the bibliography 10 \include{TexFiles/Preamble} 11 11 12 12 % ================================================================ 13 % HEADERS DEFINITION13 % TOP MATTER 14 14 % ================================================================ 15 15 16 \usepackage[french]{babel} 17 %\usepackage{color} 18 \usepackage{xcolor} 19 %\usepackage{graphics} % allows insertion of pictures 20 \usepackage{graphicx} % allows insertion of pictures 21 \usepackage[capbesideposition={top,center}]{floatrow} % allows captions 22 \floatsetup[table]{style=plaintop} % beside pictures 23 \usepackage[margin=10pt,font={small},labelsep=colon,labelfont={bf}]{caption} % Gives small font for captions 24 \usepackage{enumitem} % allows non-bold description items 25 \usepackage{longtable} % allows multipage tables 26 %\usepackage{colortbl} % gives coloured panels behind table columns 27 28 %hyperref 29 \usepackage[ % 30 pdftitle={NEMO ocean engine}, % 31 pdfauthor={Gurvan Madec}, % pdfsubject={The preprint document class 32 % elsart},% pdfkeywords={diapycnal diffusion,numerical mixing,z-level models},% 33 pdfstartview=FitH, % 34 bookmarks=true, % 35 bookmarksopen=true, % 36 breaklinks=true, % 37 colorlinks=true, % 38 linkcolor=blue,anchorcolor=blue, % 39 citecolor=blue,filecolor=blue, % 40 menucolor=blue, % 41 urlcolor=blue]{hyperref} 42 % usage of exteranl hyperlink : \href{mailto:my_address@wikibooks.org}{my\_address@wikibooks.org} 43 % \url{http://www.wikibooks.org} 44 % or \href{http://www.wikibooks.org}{wikibooks home} 45 46 47 48 %%%% page styles etc................ 49 \usepackage{fancyhdr} 50 \pagestyle{fancy} 51 % with this we ensure that the chapter and section 52 % headings are in lowercase. 53 \renewcommand{\chaptermark}[1]{\markboth{#1}{}} 54 \renewcommand{\sectionmark}[1]{\markright{\thesection.\ #1}} 55 \fancyhf{} % delete current setting for header and footer 56 \fancyhead[LE,RO]{\bfseries\thepage} 57 \fancyhead[LO]{\bfseries\hspace{-0em}\rightmark} 58 \fancyhead[RE]{\bfseries\leftmark} 59 \renewcommand{\headrulewidth}{0.5pt} 60 \renewcommand{\footrulewidth}{0pt} 61 \addtolength{\headheight}{2.6pt} % make space for the rule 62 %\addtolength{\headheight}{1.6pt} % make space for the rule 63 \fancypagestyle{plain}{ 64 \fancyhead{} % get rid of headers on plain pages 65 \renewcommand{\headrulewidth}{0pt} % and the line 66 } 67 68 69 %%%% Section number in Margin....... 70 % typeset the number of each section in the left margin, with the start of each instance of 71 % sectional heading text aligned with the left hand edge of the body text. 72 \makeatletter 73 \def\@seccntformat#1{\protect\makebox[0pt][r]{\csname the#1\endcsname\quad}} 74 \makeatother 75 76 % Leave blank pages completely empty, w/o header 77 \makeatletter 78 \def\cleardoublepage{\clearpage\if@twoside \ifodd\c@page\else 79 \hbox{} 80 \vspace*{\fill} 81 \vspace{\fill} 82 \thispagestyle{empty} 83 \newpage 84 \if@twocolumn\hbox{}\newpage\fi\fi\fi} 85 \makeatother 86 87 %%%% define the chapter style ................ 88 \usepackage{minitoc} %In French : \usepackage[french]{minitoc} 89 %\usepackage{mtcoff} % invalidate the use of minitocs 90 \usepackage{fancybox} 91 92 \makeatletter 93 \def\LigneVerticale{\vrule height 5cm depth 2cm\hspace{0.1cm}\relax} 94 \def\LignesVerticales{% 95 \let\LV\LigneVerticale\LV\LV\LV\LV\LV\LV\LV\LV\LV\LV} 96 \def\GrosCarreAvecUnChiffre#1{% 97 \rlap{\vrule height 0.8cm width 1cm depth 0.2cm}% 98 \rlap{\hbox to 1cm{\hss\mbox{\color{white} #1}\hss}}% 99 \vrule height 0pt width 1cm depth 0pt} 100 \def\GrosCarreAvecTroisChiffre#1{% 101 \rlap{\vrule height 0.8cm width 1.6cm depth 0.2cm}% 102 \rlap{\hbox to 1.5cm{\hss\mbox{\color{white} #1}\hss}}% 103 \vrule height 0pt width 1cm depth 0pt} 104 105 \def\@makechapterhead#1{\hbox{% 106 \huge 107 \LignesVerticales 108 \hspace{-0.5cm}% 109 \GrosCarreAvecUnChiffre{\thechapter} 110 \hspace{0.2cm}\hbox{#1}% 111 % \GrosCarreAvecTroisChiffre{\thechapter} 112 % \hspace{1cm}\hbox{#1}% 113 %}\par\vskip 2cm} 114 }\par\vskip 1cm} 115 \def\@makeschapterhead#1{\hbox{% 116 \huge 117 \LignesVerticales 118 %\hspace{0.5cm}% 119 \hbox{#1}% 120 }\par\vskip 2cm} 121 \makeatother 122 123 %\def\thechapter{\Roman{chapter}} % chapter number to be Roman 124 125 126 %%%% Mathematics............... 127 %\documentclass{amsart} 128 \usepackage{xspace} % helpd ensure correct spacing after macros 129 \usepackage{latexsym} 130 \usepackage{amssymb} 131 \usepackage{amsmath} 132 \allowdisplaybreaks[1] % allow page breaks in the middle of equations 133 \usepackage{./TexFiles/math_abbrev} % use maths shortcuts 134 135 136 \usepackage{times} % use times font for text 137 %\usepackage{mathtime} % font for illustrator to work (belleek fonts ) 138 %\usepackage[latin1]{inputenc} % allows some unicode removed (agn) 139 140 141 %%% essai commande 142 \newcommand{\nl} [1] {\texttt{\small {\textcolor{blue}{#1}} } } 143 \newcommand{\nlv} [1] {\texttt{\footnotesize#1}\xspace} 144 \newcommand{\smnlv} [1] {\texttt{\scriptsize#1}\xspace} 145 146 %%%% namelist & code display................................ 147 \usepackage{alltt} %% alltt for namelist 148 \usepackage{verbatim} %% alltt for namelist 149 % namelists 150 \newcommand{\namdisplay} [1] { 151 \begin{alltt} 152 {\tiny \verbatiminput{./TexFiles/Namelist/#1}} 153 \end{alltt} 154 \vspace{-10pt} 155 } 156 % code display 157 %\newcommand{\codedisplay} [1] { \begin{alltt} {\tiny {\begin{verbatim} {#1}} \end{verbatim} } \end{alltt} } 158 159 160 161 %%%% commands for working with text................................ 162 % command to "comment out" portions of text ({} argument) or not ({#1} argument) 163 \newcommand{\amtcomment}[1]{} % command to "commented out" portions of text or not (#1 in argument) 164 \newcommand{\sgacomment}[1]{} % command to "commented out" portions of 165 \newcommand{\gmcomment}[1]{} % command to "commented out" portions of 166 % % text that span line breaks 167 %Red (NR) or Yellow(WARN) 168 %\newcommand{\NR} {\colorbox{red}{#1}} 169 %\newcommand{\WARN} {{ \colorbox{yellow}{#1}} } 170 171 172 173 %%% index commands...................... 174 \usepackage{makeidx} 175 %\usepackage{showidx} % show the index entry 176 177 \newcommand{\mdl} [1] {\textit{#1.F90}\index{Modules!#1}} %module (mdl) 178 \newcommand{\rou} [1] {\textit{#1}\index{Routines!#1}} %module (routine) 179 \newcommand{\hf} [1] {\textit{#1.h90}\index{h90 file!#1}} %module (h90 files) 180 \newcommand{\ngn} [1] {\textit{#1}\index{Namelist Group Name!#1}} %namelist name (nampar) 181 \newcommand{\np} [1] {\textit{#1}\index{Namelist variables!#1}} %namelist variable 182 \newcommand{\jp} [1] {\textit{#1}\index{Model parameters!#1}} %model parameter (jp) 183 \newcommand{\pp} [1] {\textit{#1}\index{Model parameters!#1}} %namelist parameter (pp) 184 \newcommand{\ifile} [1] {\textit{#1.nc}\index{Input NetCDF files!#1.nc}} %input NetCDF files (.nc) 185 \newcommand{\key} [1] {\textbf{key\_#1}\index{CPP keys!key\_#1}} %key_cpp (key) 186 \newcommand{\NEMO} {\textit{NEMO}\xspace} %NEMO (nemo) 187 188 %%%% Bibliography ............. 189 \usepackage[nottoc, notlof, notlot]{tocbibind} 190 \usepackage[square, comma]{natbib} 191 \bibpunct{[}{]}{,}{a}{}{;} %suppress "," after "et al." 192 \providecommand{\bibfont}{\small} 193 16 \include{TexFiles/Top_Matter} 194 17 195 18 % ================================================================ 196 % FRONT PAGE 197 % ================================================================ 198 199 %\usepackage{pstricks} 200 \title{ 201 %\psset{unit=1.1in,linewidth=4pt} %parameters of the units for pstricks 202 % \rput(0,2){ \includegraphics[width=1.1\textwidth]{./TexFiles/Figures/logo_ALL.pdf} } \\ 203 % \vspace{0.1cm} 204 \vspace{-6.0cm} 205 \includegraphics[width=1.1\textwidth]{./TexFiles/Figures/logo_ALL.pdf}\\ 206 \vspace{5.1cm} 207 \includegraphics[width=0.9\textwidth]{./TexFiles/Figures/NEMO_logo_Black.pdf} \\ 208 \vspace{1.4cm} 209 \rule{345pt}{1.5pt} \\ 210 \vspace{0.45cm} 211 {\Huge NEMO ocean engine} 212 \rule{345pt}{1.5pt} \\ 213 } 214 %{ -- Draft --} } 215 %\date{\today} 216 \date{ 217 January 2016 \\ 218 {\small -- version 3.6 stable --} \\ 219 ~ \\ 220 \textit{\small Note du P\^ole de mod\'{e}lisation de l'Institut Pierre-Simon Laplace No 27 }\\ 221 \vspace{0.45cm} 222 { ISSN No 1288-1619.} 223 } 224 225 226 \author{ 227 \Large Gurvan Madec, and the NEMO team \\ 228 \texttt{\small gurvan.madec@locean-ipsl.umpc.fr} \\ 229 \texttt{\small nemo\_st@locean-ipsl.umpc.fr} \\ 230 %{\small Laboratoire d'Oc\'{e}anographie et du Climat: Exp\'{e}rimentation et Approches Num\'{e}riques } 231 } 232 233 \dominitoc 234 \makeindex %type this first : makeindex -s NEMO.ist NEMO_book.idx 235 236 % ================================================================ 237 % Include ONLY order 238 % ================================================================ 239 240 %\includeonly{./TexFiles/Chapters/Chap_MISC} 241 %\includeonly{./TexFiles/Chapters/Chap_ZDF} 242 %\includeonly{./TexFiles/Chapters/Chap_STP,./TexFiles/Chapters/Chap_SBC,./TexFiles/Chapters/Chap_TRA} 243 %\includeonly{./TexFiles/Chapters/Chap_LBC,./TexFiles/Chapters/Chap_MISC} 244 %\includeonly{./TexFiles/Chapters/Chap_Model_Basics} 245 %\includeonly{./TexFiles/Chapters/Annex_A,./TexFiles/Chapters/Annex_B,./TexFiles/Chapters/Annex_C,./TexFiles/Chapters/Annex_D} 246 247 % ================================================================ 19 % DOCUMENT 248 20 % ================================================================ 249 21 … … 264 36 % ================================================================ 265 37 266 \ include{./TexFiles/Chapters/Abstracts_Foreword}38 \subfile{TexFiles/Chapters/Abstracts_Foreword} 267 39 268 40 % ================================================================ … … 270 42 % ================================================================ 271 43 272 \ include{./TexFiles/Chapters/Introduction}44 \subfile{TexFiles/Chapters/Introduction} 273 45 274 46 % ================================================================ … … 276 48 % ================================================================ 277 49 278 \ include{./TexFiles/Chapters/Chap_Model_Basics}50 \subfile{TexFiles/Chapters/Chap_Model_Basics} 279 51 280 \ include{./TexFiles/Chapters/Chap_STP} % Time discretisation (time stepping strategy)52 \subfile{TexFiles/Chapters/Chap_STP} % Time discretisation (time stepping strategy) 281 53 282 \ include{./TexFiles/Chapters/Chap_DOM} % Space discretisation54 \subfile{TexFiles/Chapters/Chap_DOM} % Space discretisation 283 55 284 \ include{./TexFiles/Chapters/Chap_TRA} % Tracer advection/diffusion equation56 \subfile{TexFiles/Chapters/Chap_TRA} % Tracer advection/diffusion equation 285 57 286 \ include{./TexFiles/Chapters/Chap_DYN} % Dynamics : momentum equation58 \subfile{TexFiles/Chapters/Chap_DYN} % Dynamics : momentum equation 287 59 288 \ include{./TexFiles/Chapters/Chap_SBC} % Surface Boundary Conditions60 \subfile{TexFiles/Chapters/Chap_SBC} % Surface Boundary Conditions 289 61 290 \ include{./TexFiles/Chapters/Chap_LBC} % Lateral Boundary Conditions62 \subfile{TexFiles/Chapters/Chap_LBC} % Lateral Boundary Conditions 291 63 292 \ include{./TexFiles/Chapters/Chap_LDF} % Lateral diffusion64 \subfile{TexFiles/Chapters/Chap_LDF} % Lateral diffusion 293 65 294 \ include{./TexFiles/Chapters/Chap_ZDF} % Vertical diffusion66 \subfile{TexFiles/Chapters/Chap_ZDF} % Vertical diffusion 295 67 296 \ include{./TexFiles/Chapters/Chap_DIA} % Outputs and Diagnostics68 \subfile{TexFiles/Chapters/Chap_DIA} % Outputs and Diagnostics 297 69 298 \ include{./TexFiles/Chapters/Chap_OBS}% Observation operator70 \subfile{TexFiles/Chapters/Chap_OBS} % Observation operator 299 71 300 \ include{./TexFiles/Chapters/Chap_ASM}% Assimilation increments72 \subfile{TexFiles/Chapters/Chap_ASM} % Assimilation increments 301 73 302 \ include{./TexFiles/Chapters/Chap_STO}% Stochastic param.74 \subfile{TexFiles/Chapters/Chap_STO} % Stochastic param. 303 75 304 \ include{./TexFiles/Chapters/Chap_MISC} % Miscellaneous topics76 \subfile{TexFiles/Chapters/Chap_MISC} % Miscellaneous topics 305 77 306 \ include{./TexFiles/Chapters/Chap_CFG} % Predefined configurations78 \subfile{TexFiles/Chapters/Chap_CFG} % Predefined configurations 307 79 308 80 % ================================================================ … … 312 84 \appendix 313 85 314 %\ include{./TexFiles/Chapters/Chap_Conservation}315 \ include{./TexFiles/Chapters/Annex_A} % generalised vertical coordinate316 \ include{./TexFiles/Chapters/Annex_B} % diffusive operator317 \ include{./TexFiles/Chapters/Annex_C} % Discrete invariants of the eqs.318 \ include{./TexFiles/Chapters/Annex_ISO} % Isoneutral diffusion using triads319 \ include{./TexFiles/Chapters/Annex_D} % Coding rules320 %\ include{./TexFiles/Chapters/Annex_E} % Notes on some on going staff (no included in the DOC)321 %\ include{./TexFiles/Chapters/Annex_Fox-Kemper} % Notes on Fox-Kemper (no included in the DOC)322 %\ include{./TexFiles/Chapters/Annex_EVP} % Notes on EVP (no included in the DOC)86 %\subfile{TexFiles/Chapters/Chap_Conservation} 87 \subfile{TexFiles/Chapters/Annex_A} % generalised vertical coordinate 88 \subfile{TexFiles/Chapters/Annex_B} % diffusive operator 89 \subfile{TexFiles/Chapters/Annex_C} % Discrete invariants of the eqs. 90 \subfile{TexFiles/Chapters/Annex_ISO} % Isoneutral diffusion using triads 91 \subfile{TexFiles/Chapters/Annex_D} % Coding rules 92 %\subfile{TexFiles/Chapters/Annex_E} % Notes on some on going staff (no included in the DOC) 93 %\subfile{TexFiles/Chapters/Annex_Fox-Kemper} % Notes on Fox-Kemper (no included in the DOC) 94 %\subfile{TexFiles/Chapters/Annex_EVP} % Notes on EVP (no included in the DOC) 323 95 324 96 % ================================================================ … … 334 106 335 107 %%\bibliographystyle{plainat} 336 \bibliographystyle{ ./TexFiles/ametsoc} % AMS biblio style (JPO)337 \bibliography{ ./TexFiles/Biblio/Biblio}108 \bibliographystyle{TexFiles/Styles/ametsoc} % AMS biblio style (JPO) 109 \bibliography{TexFiles/Bibliography/Biblio} 338 110 339 111 % ================================================================
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