glimmer.tex

\begin{document}

\frontmatter

\title{CISM {\glimmerver} Documentation}
\author{
%William Lipscomb\footnotemark[\text{1,2}]\footnotemark[2],
William Lipscomb$^{1,2}$,
Stephen Price\thanks{Group T-3, Fluid Dynamics and Solid Mechanics, Los Alamos National Laboratory}, 
Matthew Hoffman\footnotemark[1],
Gunter R. Leguy \thanks{Climate and Global Dynamics Laboratory, National Center for Atmospheric Research}, \\
Magnus Hagdorn\thanks{School of GeoSciences, University of Edinburgh}, 
Ian Rutt\thanks{Department of Geography, Swansea University},
Tony Payne\thanks{School of Geographical Sciences, University of Bristol},
Felix Hebeler\thanks{Department of Geography, University of Zurich (original affiliation while working on project)},
Joseph H. Kennedy \thanks{Computational Earth Sciences Group, Oak Ridge National Laboratory}}


\maketitle

\chapter*{
\begin{center}
\textbf{\Large CISM2 Code Developers}
\end{center}
}

\author{Erin Barker (Los Alamos National Laboratory*),}
\author{Tim Bocek (University of Montana, Missoula*),}
\author{Josh Campbell (University of Montana, Missoula),}
\author{Katherine J. Evans (Oak Ridge National Laboratory),}
\author{Jeremy Fyke (Los Alamos National Laboratory*),}
\author{Glen Granzow (University of Montana, Missoula),}
\author{Magnus Hagdorn (School of GeoSciences, University of Edinburgh),}
\author{Brian Hand (University of Montana, Missoula*),}
\author{Felix Hebeler (University of Zurich*),}
\author{Matthew Hoffman (Los Alamos National Laboratory),}
\author{Jesse Johnson (University of Montana, Missoula),}
\author{Irina Kalashnikova (Sandia National Laboratories),}
\author{Joseph H. Kennedy (Oak Ridge National Laboratory),}
\author{Gunter R. Leguy (National Center for Atmospheric Research),}
\author{Jean-Francois Lemieux (New York University*),}
\author{William Lipscomb (Los Alamos National Laboratory),}
\author{Daniel Martin (Lawrence Berkeley National Laboratory),}
\author{Jeffrey A. Nichols (Oak Ridge National Laboratory),}
\author{Ryan Nong (Sandia National Laboratories*),}
\author{Matthew R. Norman (Oak Ridge National Laboratory),}
\author{Tony Payne (University of Bristol),}
\author{Stephen Price (Los Alamos National Laboratory),}
\author{Doug Ranken (Los Alamos National Laboratory),}
\author{Ian Rutt (Department of Geography, Swansea University),}
\author{William Sacks (National Center for Atmospheric Research),}
\author{Andrew Salinger (Sandia National Laboratories),}
\author{James B. White III (Oak Ridge National Laboratory*),}
\author{Jon Wolfe (National Center for Atmospheric Research*),}
\author{Patrick Worley (Oak Ridge National Laboratory),}
\author{Timothy Wylie (University of Montana, Missoula*),}

\textit{* author's original affiliation while working on project}

\chapter*{
\begin{center}
\textbf{\Large Funding}
\end{center}
}

CISM development was supported primarily by the Earth System Modeling program, Office of Biological and Envi- 15 ronmental Research (BER) of the U.S. Department of EnergyÕs Office of Science. Additional support was provided by the DOEÕs Office of Advanced Scientific Computing Research (ASCR), by BERÕs Regional and Global Climate Modeling Program, and by the National Sci- ence Foundation. The National Center for Atmospheric Research is sponsored by the National Science Foundation. CISM has evolved from the Glimmer model which was supported by the U.K. National Environmental Research Council (through the Centre for Polar and Ocean Modelling).

\tableofcontents

\ifthenelse{\boolean{html}}
{
\Configure{graphics*} 
         {eps} 
         {\Needs{"convert \csname Gin@base\endcsname.eps 
                               \csname Gin@base\endcsname.png"}% 
          \Picture[pict]{\csname Gin@base\endcsname.png}% 
         } 

}
{}

\mainmatter
\part{User Documentation}

\chapter{Introduction and Overview}
\newcommand{\dir}{intro}
\input{\dir/intro.tex}

\chapter{Installing CISM}
\label{chp:install}
\renewcommand{\dir}{install}
\input{\dir/install.tex}

\chapter{Introduction to Ice Sheet Modeling: Derivation of Field Equations}
\renewcommand{\dir}{modeling-intro}
\input{\dir/modeling-intro.tex}

\chapter{Shallow Ice Dynamics: Glide Dynamical Core}
\renewcommand{\dir}{shallow-ice}
\input{\dir/shallow-ice.tex}

\chapter{Introduction to Higher-Order Ice Dynamics}
\renewcommand{\dir}{higher-order}
\input{\dir/higher-order.tex}

\chapter{Higher-Order Ice Dynamics: Glissade Dynamical Core}
\renewcommand{\dir}{glissade}
\input{\dir/glissade.tex}

%\chapter{Physics}
%\renewcommand{\dir}{physics}
%\input{\dir/physics.tex}

\chapter{Running CISM}
\renewcommand{\dir}{run_cism}
\input{\dir/run.tex}

\chapter{Test Cases}
\label{chp:testcases}
\renewcommand{\dir}{tests}
\input{\dir/tests.tex}

%% Old documentation below here, with edits are noted

%\chapter{User Guide (DEPRECATED)}
%\renewcommand{\dir}{ug}
%\input{\dir/ug.tex}`

%\chapter{Tutorial (DEPRECATED)}
%\renewcommand{\dir}{tut}
%\input{\dir/tut.tex}

%\part{Developer Documentation}

%\chapter{Numerics (DEPRECATED)}
%\renewcommand{\dir}{num}
%\input{\dir/num.tex}

%\chapter{Developer Guide (DEPRECATED)}
%** The useful info in here, relevant to things that we still support, has all been moved elsewhere **
%\renewcommand{\dir}{dg}
%\input{\dir/dg.tex}

%% SP: we removed support for the "extensions", and they weren't coming up in the pdf for some reason anyway
%\renewcommand{\dir}{ext}
%\input{\dir/ext.tex}

\part{Appendix}
\label{ch:appendix}
\appendix
\renewcommand{\dir}{ug}
\chapter{NetCDF Variables}
\label{ch:appendix_vars}
\input{\dir/varlist.tex}
%** Commented out the stuff on the GLIMMER API for now **
%WHL - I agree that we don't need this in the new doc.
%\chapter{The GLIMMER API}
%\input{\dir/glum_api.tex}
%\input{\dir/glide_api.tex}
%\input{\dir/glint_api.tex}
\renewcommand{\dir}{ext}
\input{\dir/ext-app.tex}

%\chapter{Configuration File}
%\renewcommand{\dir}{dg}
%\input{\dir/config_file.tex}

\chapter{Input and Output (I/O)}
\label{ch:appendix_io}
\renewcommand{\dir}{dg}
\input{\dir/netcdf.tex}

\chapter{Commonly Used Notation}
\label{ch:notation}
\renewcommand{\dir}{appendix}
\input{\dir/notation.tex}

\part{Bibliography}
\bibliography{glimmer}
\end{document}