| 1 |
% $Header: /u/gcmpack/manual/manual.tex,v 1.30 2005/07/14 19:22:18 molod Exp $ |
| 2 |
% $Name: $ |
| 3 |
|
| 4 |
\documentclass[10pt]{book} |
| 5 |
|
| 6 |
%To help cross-reference |
| 7 |
%\usepackage{showlabels} |
| 8 |
|
| 9 |
%aja%\usepackage{amsfonts} |
| 10 |
\usepackage{amsmath} |
| 11 |
\usepackage{html} |
| 12 |
\usepackage{hthtml} |
| 13 |
\usepackage{graphicx} |
| 14 |
|
| 15 |
%cnh%\usepackage{array} |
| 16 |
%cnh%\usepackage{multirow} |
| 17 |
|
| 18 |
%eh3 Commands to reference either files or symbols within the "HTML-ized" |
| 19 |
%eh3 ("vdb") code. |
| 20 |
%eh3 |
| 21 |
%afe seems like these need to be long, sorry |
| 22 |
\newcommand{\varlink}[2]{\htmladdnormallink{\tt #1}{../code_reference/vdb/byname/#2.html}} |
| 23 |
\newcommand{\filelink}[2]{\htmladdnormallink{\bf \tt #1}{../code_reference/vdb/byname/#2.html}} |
| 24 |
|
| 25 |
% afe Commands to standardize typesetting |
| 26 |
\newcommand{\file}[1]{\texttt{#1}} |
| 27 |
\newcommand{\sectiontitle}[1]{\textsl{#1}} |
| 28 |
\newcommand{\code}[1]{\texttt{#1}} |
| 29 |
|
| 30 |
%% EH3 : try out the epsfig package |
| 31 |
\usepackage[dvips]{epsfig} |
| 32 |
\def\scalefig#1{\epsfxsize #1\textwidth} |
| 33 |
|
| 34 |
%EH3% ========================================================== |
| 35 |
%EH3% *** PRIVATE SECTIONS ****** PRIVATE SECTIONS *** |
| 36 |
%EH3% |
| 37 |
%EH3% Directions: To build the ``private'' or ``local-only'' |
| 38 |
%EH3% version of this manual, then edit the following so |
| 39 |
%EH3% they appear as: |
| 40 |
%EH3% |
| 41 |
%EH3% % \includecomment{versionprivate} |
| 42 |
%EH3% \excludecoment{versionprivate} |
| 43 |
%EH3% |
| 44 |
%EH3% The default is to include everything which is: |
| 45 |
%EH3% |
| 46 |
%EH3% \includecomment{versionprivate} |
| 47 |
%EH3% % \excludecoment{versionprivate} |
| 48 |
|
| 49 |
%\includecomment{versionprivate} |
| 50 |
\excludecomment{versionprivate} |
| 51 |
|
| 52 |
%EH3% |
| 53 |
%EH3% To use this comment, simply bracket any part of the |
| 54 |
%EH3% manual with two lines that contain ONLY the following |
| 55 |
%EH3% pair: |
| 56 |
%EH3% |
| 57 |
%EH3% \begin{versionprivate} |
| 58 |
%EH3% \end{versionprivate} |
| 59 |
%EH3% |
| 60 |
%EH3% with NO additional comments or other commands on the |
| 61 |
%EH3% lines containing the \begin{...}\end{...} statements. |
| 62 |
%EH3% |
| 63 |
%EH3% *** PRIVATE SECTIONS ****** PRIVATE SECTIONS *** |
| 64 |
%EH3% ========================================================== |
| 65 |
|
| 66 |
|
| 67 |
%ph%\usepackage{epsfig} |
| 68 |
%ph%\usepackage{psfrag} |
| 69 |
%ph%\usepackage{oldgerm} |
| 70 |
|
| 71 |
% I commented the following because it introduced excessive white space |
| 72 |
%aja%\usepackage{palatcm} % better PDF |
| 73 |
|
| 74 |
% page headers and footers |
| 75 |
%cnh%\usepackage{fancyhdr} |
| 76 |
%\pagestyle{fancy} |
| 77 |
%cnh%\fancyhead{} |
| 78 |
%cnh%\fancyhead[LO]{\slshape \rightmark} |
| 79 |
%cnh%\fancyhead[RE]{\slshape \leftmark} |
| 80 |
%cnh%\fancyhead[RO,LE]{\thepage} |
| 81 |
%cnh%\fancyfoot[CO,CE]{\today} |
| 82 |
%cnh%\fancyfoot[RO,LE]{ } |
| 83 |
%cnh%\renewcommand{\headrulewidth}{0.4pt} |
| 84 |
%cnh%\renewcommand{\footrulewidth}{0.4pt} |
| 85 |
|
| 86 |
% bibtex stuff |
| 87 |
%aja%\newcommand{\BIBPATH}{.} |
| 88 |
%aja%\usepackage{natbib} |
| 89 |
%aja%\bibliographystyle{\BIBPATH/jmr_my} |
| 90 |
%aja%\gdef\harvardleft{[} |
| 91 |
%aja%\gdef\harvardright{]} |
| 92 |
%aja%\bibpunct{[}{]}{,}{a}{}{,} |
| 93 |
\bibliographystyle{plain} |
| 94 |
|
| 95 |
% referencing |
| 96 |
%ph%\newcommand{\refequ}[1]{equation (\ref{equ:#1})} |
| 97 |
%ph%\newcommand{\refequbig}[1]{Equation (\ref{equ:#1})} |
| 98 |
%ph%\newcommand{\reftab}[1]{Tab.~\ref{tab:#1}} |
| 99 |
%ph%\newcommand{\reftabno}[1]{\ref{tab:#1}} |
| 100 |
%ph%\newcommand{\reffig}[1]{Fig.~\ref{fig:#1}} |
| 101 |
%ph%\newcommand{\reffigno}[1]{\ref{fig:#1}} |
| 102 |
|
| 103 |
% stuff for psfrag |
| 104 |
%ph%\newcommand{\textinfigure}[1]{{\footnotesize\textbf{\textsf{#1}}}} |
| 105 |
%ph%\newcommand{\mathinfigure}[1]{\small\ensuremath{{#1}}} |
| 106 |
|
| 107 |
% This allows numbering of subsubsections |
| 108 |
\setcounter{secnumdepth}{3} |
| 109 |
% This changes the the chapter title |
| 110 |
%\renewcommand{\chaptername}{Section} |
| 111 |
|
| 112 |
|
| 113 |
% This allows hyperlinks in PDF |
| 114 |
% hyperref package and colors for hyperref package |
| 115 |
\usepackage{color} |
| 116 |
\usepackage{hyperref} |
| 117 |
%\usepackage[dvips] |
| 118 |
\definecolor{darkgreen}{rgb}{0,0.4,0} |
| 119 |
\definecolor{darkblue}{rgb}{0,0,0.4} |
| 120 |
\definecolor{darkred}{rgb}{0.5,0,0} |
| 121 |
\hypersetup{breaklinks=true, |
| 122 |
colorlinks=true, |
| 123 |
linkcolor=darkgreen, |
| 124 |
citecolor=darkblue, |
| 125 |
pagecolor=darkred, |
| 126 |
pdftitle={MITgcm Release 1 Documentation}, |
| 127 |
pdfauthor={MITgcm-support@mitgcm.org}, |
| 128 |
pdfkeywords={oceanography, ocean model, general circulation model, |
| 129 |
non-hydrostatic, finite volume, inverse methods, adjoint method} |
| 130 |
} |
| 131 |
|
| 132 |
% Some definitions (AMM) |
| 133 |
\def\p#1{{\partial \over {\partial #1}}} |
| 134 |
\def\pp#1#2{{\partial #1 \over {\partial #2}}} |
| 135 |
\def\dd#1#2{{d #1 \over {d #2}}} |
| 136 |
\def\bq{\begin{equation}} |
| 137 |
\def\bqa{\begin{eqnarray}} |
| 138 |
\def\eq{\end{equation}} |
| 139 |
\def\eqa{\end{eqnarray}} |
| 140 |
|
| 141 |
\def\h{ {1\over2} } |
| 142 |
\def\txt{\mbox{$2^\circ$ x $2.5^\circ \,$}} |
| 143 |
\def\fxf{\mbox{$4^\circ$ x $5^\circ \,$}} |
| 144 |
|
| 145 |
\def\blankpage{ \vspace*{\fill} \vspace{5in} \vfill \newpage} |
| 146 |
|
| 147 |
|
| 148 |
\begin{document} |
| 149 |
|
| 150 |
\bodytext{bgcolor="#FFFFFFFF"} |
| 151 |
|
| 152 |
\tableofcontents |
| 153 |
%\pagebreak |
| 154 |
|
| 155 |
%\part{MIT GCM basics} |
| 156 |
|
| 157 |
% Section: Overview |
| 158 |
\input{part1/part1} |
| 159 |
%\pagebreak |
| 160 |
|
| 161 |
% Section: Discretization and Algorithm |
| 162 |
\input{part2/part2} |
| 163 |
%\pagebreak |
| 164 |
|
| 165 |
% Section: Getting started |
| 166 |
\input{part3/part3} |
| 167 |
%\pagebreak |
| 168 |
|
| 169 |
% Section: Software Architecture |
| 170 |
\input{part4/part4} |
| 171 |
%\pagebreak |
| 172 |
|
| 173 |
|
| 174 |
%\part{Adjoint of the MIT GCM} |
| 175 |
|
| 176 |
% Section: Automatic Differentiation |
| 177 |
\input{part5/part5} |
| 178 |
%\pagebreak |
| 179 |
|
| 180 |
|
| 181 |
%\part{Additional features} |
| 182 |
|
| 183 |
% Section: Physical Packages |
| 184 |
\input{part6/part6} |
| 185 |
%\pagebreak |
| 186 |
|
| 187 |
% Section: Pre-processing and Post-processing Tools |
| 188 |
\input{part7/part7} |
| 189 |
%\pagebreak |
| 190 |
|
| 191 |
% Section: ECCO |
| 192 |
\input{part8/part8} |
| 193 |
%\pagebreak |
| 194 |
|
| 195 |
% Section: Model Uses |
| 196 |
\input{model_uses} |
| 197 |
%\pagebreak |
| 198 |
|
| 199 |
% Section: References: |
| 200 |
%\markboth{BIBLIOGRAPHY}{BIBLIOGRAPHY} |
| 201 |
\addcontentsline{toc}{chapter}{BIBLIOGRAPHY} |
| 202 |
%aja%\bibliography{\BIBPATH/manual_references} |
| 203 |
\bibliography{manual_references} |
| 204 |
|
| 205 |
\end{document} |
Parent Directory
| 
Revision Log
| 
Revision Graph