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%aja%\usepackage{amsfonts} |
%aja%\usepackage{amsfonts} |
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\usepackage{amsmath} |
\usepackage{amsmath} |
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\usepackage{html} |
\usepackage{html} |
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\usepackage{graphics} |
\usepackage{hthtml} |
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\usepackage{graphicx} |
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%cnh%\usepackage{array} |
%cnh%\usepackage{array} |
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%cnh%\usepackage{multirow} |
%cnh%\usepackage{multirow} |
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| 18 |
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%eh3 Commands to reference either files or symbols within the "HTML-ized" |
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%eh3 ("vdb") code. |
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%eh3 |
| 21 |
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%afe seems like these need to be long, sorry |
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\newcommand{\varlink}[2]{\htmladdnormallink{\tt #1}{../code_reference/vdb/byname/#2.html}} |
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\newcommand{\filelink}[2]{\htmladdnormallink{\bf \tt #1}{../code_reference/vdb/byname/#2.html}} |
| 24 |
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% afe Commands to standardize typesetting |
| 26 |
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\newcommand{\file}[1]{\texttt{#1}} |
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| 28 |
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\newcommand{\sectiontitle}[1]{\textsl{#1}} |
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| 30 |
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\newcommand{\code}[1]{\texttt{#1}} |
| 31 |
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| 33 |
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| 34 |
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%eh3 try out the epsfig package |
| 35 |
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\usepackage[dvips]{epsfig} |
| 36 |
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\def\scalefig#1{\epsfxsize #1\textwidth} |
| 37 |
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| 38 |
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%ph%\usepackage{epsfig} |
%ph%\usepackage{epsfig} |
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%ph%\usepackage{psfrag} |
%ph%\usepackage{psfrag} |
| 41 |
%ph%\usepackage{oldgerm} |
%ph%\usepackage{oldgerm} |
| 56 |
%cnh%\renewcommand{\footrulewidth}{0.4pt} |
%cnh%\renewcommand{\footrulewidth}{0.4pt} |
| 57 |
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|
| 58 |
% bibtex stuff |
% bibtex stuff |
| 59 |
\newcommand{\BIBPATH}{.} |
%aja%\newcommand{\BIBPATH}{.} |
| 60 |
\usepackage{natbib} |
%aja%\usepackage{natbib} |
| 61 |
\bibliographystyle{\BIBPATH/jmr_my} |
%aja%\bibliographystyle{\BIBPATH/jmr_my} |
| 62 |
\gdef\harvardleft{[} |
%aja%\gdef\harvardleft{[} |
| 63 |
\gdef\harvardright{]} |
%aja%\gdef\harvardright{]} |
| 64 |
\bibpunct{[}{]}{,}{a}{}{,} |
%aja%\bibpunct{[}{]}{,}{a}{}{,} |
| 65 |
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\bibliographystyle{plain} |
| 66 |
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| 67 |
% referencing |
% referencing |
| 68 |
%ph%\newcommand{\refequ}[1]{equation (\ref{equ:#1})} |
%ph%\newcommand{\refequ}[1]{equation (\ref{equ:#1})} |
| 82 |
%\renewcommand{\chaptername}{Section} |
%\renewcommand{\chaptername}{Section} |
| 83 |
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| 84 |
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| 85 |
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% This allows hyperlinks in PDF |
| 86 |
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% hyperref package and colors for hyperref package |
| 87 |
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\usepackage{color} |
| 88 |
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\usepackage[dvips]{hyperref} |
| 89 |
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\definecolor{darkgreen}{rgb}{0,0.4,0} |
| 90 |
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\definecolor{darkblue}{rgb}{0,0,0.4} |
| 91 |
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\definecolor{darkred}{rgb}{0.5,0,0} |
| 92 |
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\hypersetup{breaklinks=true, |
| 93 |
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colorlinks=true, |
| 94 |
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linkcolor=darkgreen, |
| 95 |
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citecolor=darkblue, |
| 96 |
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pagecolor=darkred, |
| 97 |
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pdftitle={MITgcm Release 1 Documentation}, |
| 98 |
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pdfauthor={MITgcm-support@mitgcm.org}, |
| 99 |
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pdfkeywords={oceanography, ocean model, general circulation model, |
| 100 |
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non-hydrostatic, finite volume, inverse methods, adjoint method} |
| 101 |
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} |
| 102 |
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| 103 |
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% Some definitions (AMM) |
| 104 |
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\def\p#1{{\partial \over {\partial #1}}} |
| 105 |
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\def\pp#1#2{{\partial #1 \over {\partial #2}}} |
| 106 |
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\def\dd#1#2{{d #1 \over {d #2}}} |
| 107 |
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\def\bq{\begin{equation}} |
| 108 |
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\def\bqa{\begin{eqnarray}} |
| 109 |
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\def\eq{\end{equation}} |
| 110 |
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\def\eqa{\end{eqnarray}} |
| 111 |
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| 112 |
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\def\h{ {1\over2} } |
| 113 |
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\def\txt{\mbox{$2^\circ$ x $2.5^\circ \,$}} |
| 114 |
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\def\fxf{\mbox{$4^\circ$ x $5^\circ \,$}} |
| 115 |
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| 116 |
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\def\blankpage{ \vspace*{\fill} \vspace{5in} \vfill \newpage} |
| 117 |
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| 118 |
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| 119 |
\begin{document} |
\begin{document} |
| 120 |
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| 121 |
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\bodytext{bgcolor="#FFFFFFFF"} |
| 122 |
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| 123 |
\tableofcontents |
\tableofcontents |
| 124 |
\pagebreak |
%\pagebreak |
| 125 |
|
|
| 126 |
\part{MIT GCM basics} |
%\part{MIT GCM basics} |
| 127 |
|
|
| 128 |
% Section: Overview |
% Section: Overview |
| 129 |
\input{part1/part1} |
\input{part1/part1} |
| 142 |
%\pagebreak |
%\pagebreak |
| 143 |
|
|
| 144 |
|
|
| 145 |
\part{Adjoint of the MIT GCM} |
%\part{Adjoint of the MIT GCM} |
| 146 |
|
|
| 147 |
% Section: Automatic Differentiation |
% Section: Automatic Differentiation |
| 148 |
\input{part5/part5} |
\input{part5/part5} |
| 149 |
%\pagebreak |
%\pagebreak |
| 150 |
|
|
| 151 |
|
|
| 152 |
\part{Additional features} |
%\part{Additional features} |
| 153 |
|
|
| 154 |
% Section: Physical Packages |
% Section: Physical Packages |
| 155 |
\input{part6/part6} |
\input{part6/part6} |
| 159 |
\input{part7/part7} |
\input{part7/part7} |
| 160 |
%\pagebreak |
%\pagebreak |
| 161 |
|
|
| 162 |
% Section: ECCO Interface |
% Section: ECCO |
| 163 |
\input{part8/part8} |
\input{part8/part8} |
| 164 |
%\pagebreak |
%\pagebreak |
| 165 |
|
|
| 166 |
|
% Section: Model Uses |
| 167 |
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\input{model_uses} |
| 168 |
|
%\pagebreak |
| 169 |
|
|
| 170 |
% Section: References: |
% Section: References: |
| 171 |
\markboth{BIBLIOGRAPHY}{BIBLIOGRAPHY} |
%\markboth{BIBLIOGRAPHY}{BIBLIOGRAPHY} |
| 172 |
\addcontentsline{toc}{chapter}{BIBLIOGRAPHY} |
\addcontentsline{toc}{chapter}{BIBLIOGRAPHY} |
| 173 |
\bibliography{\BIBPATH/manual_references} |
%aja%\bibliography{\BIBPATH/manual_references} |
| 174 |
|
\bibliography{manual_references} |
| 175 |
|
|
| 176 |
\end{document} |
\end{document} |
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