| 1 | % $Header$ | % $Header$ | 
| 2 | % $Name$ | % $Name$ | 
| 3 |  |  | 
| 4 | \documentclass[12pt]{book} | \documentclass[10pt]{book} | 
| 5 |  |  | 
| 6 | %To help cross-reference | %To help cross-reference | 
| 7 | %\usepackage{showlabels} | %\usepackage{showlabels} | 
| 9 | %aja%\usepackage{amsfonts} | %aja%\usepackage{amsfonts} | 
| 10 | \usepackage{amsmath} | \usepackage{amsmath} | 
| 11 | \usepackage{html} | \usepackage{html} | 
| 12 |  | \usepackage{hthtml} | 
| 13 | \usepackage{graphicx} | \usepackage{graphicx} | 
| 14 |  |  | 
| 15 | %cnh%\usepackage{array} | %cnh%\usepackage{array} | 
| 16 | %cnh%\usepackage{multirow} | %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} | %ph%\usepackage{epsfig} | 
| 68 | %ph%\usepackage{psfrag} | %ph%\usepackage{psfrag} | 
| 69 | %ph%\usepackage{oldgerm} | %ph%\usepackage{oldgerm} | 
| 110 | %\renewcommand{\chaptername}{Section} | %\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} | \begin{document} | 
| 149 |  |  | 
| 150 | \bodytext{bgcolor="#FFFFFFFF"} | \bodytext{bgcolor="#FFFFFFFF"} | 
| 184 | \input{part6/part6} | \input{part6/part6} | 
| 185 | %\pagebreak | %\pagebreak | 
| 186 |  |  | 
| 187 | % Section: Diagnostics | % Section: Pre-processing and Post-processing Tools | 
| 188 | \input{part7/part7} | \input{part7/part7} | 
| 189 | %\pagebreak | %\pagebreak | 
| 190 |  |  | 
| 191 | % Section: ECCO Interface | % Section: ECCO | 
| 192 | \input{part8/part8} | \input{part8/part8} | 
| 193 | %\pagebreak | %\pagebreak | 
| 194 |  |  | 
| 195 |  | % Section: Model Uses | 
| 196 |  | \input{model_uses} | 
| 197 |  | %\pagebreak | 
| 198 |  |  | 
| 199 | % Section: References: | % Section: References: | 
| 200 | %\markboth{BIBLIOGRAPHY}{BIBLIOGRAPHY} | %\markboth{BIBLIOGRAPHY}{BIBLIOGRAPHY} | 
| 201 | \addcontentsline{toc}{chapter}{BIBLIOGRAPHY} | \addcontentsline{toc}{chapter}{BIBLIOGRAPHY} |