--- manual/s_getstarted/text/getting_started.tex 2006/06/28 16:48:19 1.37 +++ manual/s_getstarted/text/getting_started.tex 2010/01/21 19:20:08 1.40 @@ -1,19 +1,17 @@ -% $Header: /home/ubuntu/mnt/e9_copy/manual/s_getstarted/text/getting_started.tex,v 1.37 2006/06/28 16:48:19 molod Exp $ +% $Header: /home/ubuntu/mnt/e9_copy/manual/s_getstarted/text/getting_started.tex,v 1.40 2010/01/21 19:20:08 jmc Exp $ % $Name: $ %\section{Getting started} -In this section, we describe how to use the model. In the first -section, we provide enough information to help you get started with -the model. We believe the best way to familiarize yourself with the +We believe the best way to familiarize yourself with the model is to run the case study examples provided with the base version. Information on how to obtain, compile, and run the code is -found there as well as a brief description of the model structure -directory and the case study examples. The latter and the code -structure are described more fully in chapters -\ref{chap:discretization} and \ref{chap:sarch}, respectively. Here, in -this section, we provide information on how to customize the code when -you are ready to try implementing the configuration you have in mind. +found here as well as a brief description of the model structure +directory and the case study examples. Information is also provided +here on how to customize the code when you are ready to try implementing +the configuration you have in mind. The code and algorithm +are described more fully in chapters \ref{chap:discretization} and +\ref{chap:sarch}. \section{Where to find information} \label{sect:whereToFindInfo} @@ -104,7 +102,8 @@ code and CVS. It also contains a web interface to our CVS archive so that one may easily view the state of files, revisions, and other development milestones: -\begin{rawhtml} \end{rawhtml} +%\begin{rawhtml} \end{rawhtml} +\begin{rawhtml} \end{rawhtml} \begin{verbatim} http://mitgcm.org/source_code.html \end{verbatim} @@ -225,7 +224,7 @@ If you do not have CVS on your system, you can download the model as a tar file from the web site at: -\begin{rawhtml} \end{rawhtml} +\begin{rawhtml} \end{rawhtml} \begin{verbatim} http://mitgcm.org/download/ \end{verbatim} @@ -717,7 +716,7 @@ libraries and put them into an options file as described in Section \ref{sect:genmake}. One can start with one of the examples in: \begin{rawhtml} + href="http://mitgcm.org/viewvc/MITgcm/MITgcm/tools/build_options/"> \end{rawhtml} \begin{center} \texttt{MITgcm/tools/build\_options/} @@ -772,10 +771,10 @@ verification runs\begin{rawhtml} \end{rawhtml}) are available at: \begin{rawhtml} + href="http://mitgcm.org/viewvc/MITgcm/MITgcm_contrib/test_scripts/"> \end{rawhtml} {\footnotesize \tt - http://mitgcm.org/cgi-bin/viewcvs.cgi/MITgcm\_contrib/test\_scripts/ } + http://mitgcm.org/viewvc/MITgcm/MITgcm\_contrib/test\_scripts/ } \begin{rawhtml} \end{rawhtml} \end{enumerate} @@ -894,47 +893,11 @@ used to restart the model but are overwritten every other time they are output to save disk space during long integrations. - - \subsubsection{MNC output files} Unlike the \texttt{mdsio} output, the \texttt{mnc}--generated output is usually (though not necessarily) placed within a subdirectory with -a name such as \texttt{mnc\_test\_\${DATE}\_\${SEQ}}. The files -within this subdirectory are all in the ``self-describing'' netCDF -format and can thus be browsed and/or plotted using tools such as: -\begin{itemize} -\item \texttt{ncdump} is a utility which is typically included - with every netCDF install: - \begin{rawhtml} \end{rawhtml} -\begin{verbatim} -http://www.unidata.ucar.edu/packages/netcdf/ -\end{verbatim} - \begin{rawhtml} \end{rawhtml} and it converts the netCDF - binaries into formatted ASCII text files. - -\item \texttt{ncview} utility is a very convenient and quick way - to plot netCDF data and it runs on most OSes: - \begin{rawhtml} \end{rawhtml} -\begin{verbatim} -http://meteora.ucsd.edu/~pierce/ncview_home_page.html -\end{verbatim} - \begin{rawhtml} \end{rawhtml} - -\item MatLAB(c) and other common post-processing environments provide - various netCDF interfaces including: - \begin{rawhtml} \end{rawhtml} -\begin{verbatim} -http://mexcdf.sourceforge.net/ -\end{verbatim} - \begin{rawhtml} \end{rawhtml} - \begin{rawhtml} \end{rawhtml} -\begin{verbatim} -http://woodshole.er.usgs.gov/staffpages/cdenham/public_html/MexCDF/nc4ml5.html -\end{verbatim} - \begin{rawhtml} \end{rawhtml} -\end{itemize} - +a name such as \texttt{mnc\_test\_\${DATE}\_\${SEQ}}. \subsection{Looking at the output} @@ -970,3 +933,37 @@ Similar scripts for netCDF output (\texttt{rdmnc.m}) are available and they are described in Section \ref{sec:pkg:mnc}. +The MNC output files are all in the ``self-describing'' netCDF +format and can thus be browsed and/or plotted using tools such as: +\begin{itemize} +\item \texttt{ncdump} is a utility which is typically included + with every netCDF install: + \begin{rawhtml} \end{rawhtml} +\begin{verbatim} +http://www.unidata.ucar.edu/packages/netcdf/ +\end{verbatim} + \begin{rawhtml} \end{rawhtml} and it converts the netCDF + binaries into formatted ASCII text files. + +\item \texttt{ncview} utility is a very convenient and quick way + to plot netCDF data and it runs on most OSes: + \begin{rawhtml} \end{rawhtml} +\begin{verbatim} +http://meteora.ucsd.edu/~pierce/ncview_home_page.html +\end{verbatim} + \begin{rawhtml} \end{rawhtml} + +\item MatLAB(c) and other common post-processing environments provide + various netCDF interfaces including: + \begin{rawhtml} \end{rawhtml} +\begin{verbatim} +http://mexcdf.sourceforge.net/ +\end{verbatim} + \begin{rawhtml} \end{rawhtml} + \begin{rawhtml} \end{rawhtml} +\begin{verbatim} +http://woodshole.er.usgs.gov/staffpages/cdenham/public_html/MexCDF/nc4ml5.html +\end{verbatim} + \begin{rawhtml} \end{rawhtml} +\end{itemize} +