MITgcm/manual/manual.tex

% $Header: /u/u0/gcmpack/mitgcmdoc/manual.tex,v 1.8 2001/10/11 19:42:25 adcroft Exp $
% $Name:  $

\documentclass[12pt]{book}

%To help cross-reference
%\usepackage{showlabels}

%aja%\usepackage{amsfonts}
\usepackage{amsmath}
\usepackage{html}
\usepackage{graphics}

%cnh%\usepackage{array}
%cnh%\usepackage{multirow}

%ph%\usepackage{epsfig}
%ph%\usepackage{psfrag}
%ph%\usepackage{oldgerm}

% I commented the following because it introduced excessive white space
%aja%\usepackage{palatcm}              % better PDF 

% page headers and footers
%cnh%\usepackage{fancyhdr}
%\pagestyle{fancy}
%cnh%\fancyhead{}
%cnh%\fancyhead[LO]{\slshape \rightmark}
%cnh%\fancyhead[RE]{\slshape \leftmark}
%cnh%\fancyhead[RO,LE]{\thepage}
%cnh%\fancyfoot[CO,CE]{\today}
%cnh%\fancyfoot[RO,LE]{ }
%cnh%\renewcommand{\headrulewidth}{0.4pt}
%cnh%\renewcommand{\footrulewidth}{0.4pt}

% bibtex stuff
\newcommand{\BIBPATH}{.}
\usepackage{natbib}
\bibliographystyle{\BIBPATH/jmr_my}
\gdef\harvardleft{[}
\gdef\harvardright{]}
\bibpunct{[}{]}{,}{a}{}{,}

% referencing
%ph%\newcommand{\refequ}[1]{equation (\ref{equ:#1})}
%ph%\newcommand{\refequbig}[1]{Equation (\ref{equ:#1})}
%ph%\newcommand{\reftab}[1]{Tab.~\ref{tab:#1}}
%ph%\newcommand{\reftabno}[1]{\ref{tab:#1}}
%ph%\newcommand{\reffig}[1]{Fig.~\ref{fig:#1}}
%ph%\newcommand{\reffigno}[1]{\ref{fig:#1}}

% stuff for psfrag
%ph%\newcommand{\textinfigure}[1]{{\footnotesize\textbf{\textsf{#1}}}}
%ph%\newcommand{\mathinfigure}[1]{\small\ensuremath{{#1}}}

% This allows numbering of subsubsections
\setcounter{secnumdepth}{3}
% This changes the the chapter title
%\renewcommand{\chaptername}{Section}


\begin{document}

\bodytext{bgcolor="#FFFFFFFF"} 

\tableofcontents
\pagebreak

\part{MIT GCM basics}

% Section: Overview
\input{part1/part1}
%\pagebreak

% Section: Discretization and Algorithm
\input{part2/part2}
%\pagebreak

% Section: Getting started
\input{part3/part3}
%\pagebreak

% Section: Software Architecture
\input{part4/part4}
%\pagebreak


\part{Adjoint of the MIT GCM}

% Section: Automatic Differentiation
\input{part5/part5}
%\pagebreak


\part{Additional features}

% Section: Physical Packages
\input{part6/part6}
%\pagebreak

% Section: Diagnostics
\input{part7/part7}
%\pagebreak

% Section: ECCO Interface
\input{part8/part8}
%\pagebreak

% Section: References:
\markboth{BIBLIOGRAPHY}{BIBLIOGRAPHY}
\addcontentsline{toc}{chapter}{BIBLIOGRAPHY}
\bibliography{\BIBPATH/manual_references}

\end{document}
1	% $Header: /u/u0/gcmpack/mitgcmdoc/manual.tex,v 1.8 2001/10/11 19:42:25 adcroft Exp $
2	% $Name: $
3
4	\documentclass[12pt]{book}
5
6	%To help cross-reference
7	%\usepackage{showlabels}
8
9	%aja%\usepackage{amsfonts}
10	\usepackage{amsmath}
11	\usepackage{html}
12	\usepackage{graphics}
13
14	%cnh%\usepackage{array}
15	%cnh%\usepackage{multirow}
16
17	%ph%\usepackage{epsfig}
18	%ph%\usepackage{psfrag}
19	%ph%\usepackage{oldgerm}
20
21	% I commented the following because it introduced excessive white space
22	%aja%\usepackage{palatcm} % better PDF
23
24	% page headers and footers
25	%cnh%\usepackage{fancyhdr}
26	%\pagestyle{fancy}
27	%cnh%\fancyhead{}
28	%cnh%\fancyhead[LO]{\slshape \rightmark}
29	%cnh%\fancyhead[RE]{\slshape \leftmark}
30	%cnh%\fancyhead[RO,LE]{\thepage}
31	%cnh%\fancyfoot[CO,CE]{\today}
32	%cnh%\fancyfoot[RO,LE]{ }
33	%cnh%\renewcommand{\headrulewidth}{0.4pt}
34	%cnh%\renewcommand{\footrulewidth}{0.4pt}
35
36	% bibtex stuff
37	\newcommand{\BIBPATH}{.}
38	\usepackage{natbib}
39	\bibliographystyle{\BIBPATH/jmr_my}
40	\gdef\harvardleft{[}
41	\gdef\harvardright{]}
42	\bibpunct{[}{]}{,}{a}{}{,}
43
44	% referencing
45	%ph%\newcommand{\refequ}[1]{equation (\ref{equ:#1})}
46	%ph%\newcommand{\refequbig}[1]{Equation (\ref{equ:#1})}
47	%ph%\newcommand{\reftab}[1]{Tab.~\ref{tab:#1}}
48	%ph%\newcommand{\reftabno}[1]{\ref{tab:#1}}
49	%ph%\newcommand{\reffig}[1]{Fig.~\ref{fig:#1}}
50	%ph%\newcommand{\reffigno}[1]{\ref{fig:#1}}
51
52	% stuff for psfrag
53	%ph%\newcommand{\textinfigure}[1]{{\footnotesize\textbf{\textsf{#1}}}}
54	%ph%\newcommand{\mathinfigure}[1]{\small\ensuremath{{#1}}}
55
56	% This allows numbering of subsubsections
57	\setcounter{secnumdepth}{3}
58	% This changes the the chapter title
59	%\renewcommand{\chaptername}{Section}
60
61
62	\begin{document}
63
64	\bodytext{bgcolor="#FFFFFFFF"}
65
66	\tableofcontents
67	\pagebreak
68
69	\part{MIT GCM basics}
70
71	% Section: Overview
72	\input{part1/part1}
73	%\pagebreak
74
75	% Section: Discretization and Algorithm
76	\input{part2/part2}
77	%\pagebreak
78
79	% Section: Getting started
80	\input{part3/part3}
81	%\pagebreak
82
83	% Section: Software Architecture
84	\input{part4/part4}
85	%\pagebreak
86
87
88	\part{Adjoint of the MIT GCM}
89
90	% Section: Automatic Differentiation
91	\input{part5/part5}
92	%\pagebreak
93
94
95	\part{Additional features}
96
97	% Section: Physical Packages
98	\input{part6/part6}
99	%\pagebreak
100
101	% Section: Diagnostics
102	\input{part7/part7}
103	%\pagebreak
104
105	% Section: ECCO Interface
106	\input{part8/part8}
107	%\pagebreak
108
109	% Section: References:
110	\markboth{BIBLIOGRAPHY}{BIBLIOGRAPHY}
111	\addcontentsline{toc}{chapter}{BIBLIOGRAPHY}
112	\bibliography{\BIBPATH/manual_references}
113
114	\end{document}