/[MITgcm]/manual/s_outp_pkgs/text/top_section.tex
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revision 1.1.1.1 by adcroft, Wed Aug 8 16:16:26 2001 UTC revision 1.8 by molod, Mon Jul 18 20:45:28 2005 UTC
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1  % $Header$  % $Header$
2  % $Name$  % $Name$
3    
4  \chapter{Diagnostiacs and tools}  \chapter{Diagnostics and I/O - Packages II and Matlab Tools}
5    \begin{rawhtml}
6    <!-- CMIREDIR:processing_tools: -->
7    <!-- CMIREDIR:diagnostics_and_tools: -->
8    \end{rawhtml}
9    
10    \section{Diagnostics and I/O}
11    
12    The MITgcm has several packages that are related to the output
13    produced during a model integration that is used for analysis
14    of the results. The packages are related to the choice of output
15    fields and to the format of the model output.
16    
17    \newpage
18    \input{part7/diagnostics.tex}
19    
20    \newpage
21    \input{part7/mnc.tex}
22    
23    \newpage
24    \input{part7/mdsio.tex}
25    
26    \newpage
27    \input{part7/monitor.tex}
28    
29    \newpage
30    \input{part7/rw.tex}
31    
32    \newpage
33    \section{Pre- and Post- Processing Scripts and Utilities}
34    
35    There are numerous tools for pre-processing data, converting model
36    output and analysis written in Matlab, fortran (f77 and f90) and perl.
37    As yet they remain undocumented although many are self-documenting
38    (Matlab routines have "help" written into them).
39    
40    Here we'll summarize what is available but this is an ever growing resource
41    so this may not cover everything that is out there:
42    
43    \subsection{Utilities supplied with the model}
44    
45    We supply some basic scripts with the model to facilitate conversion or reading
46    of data into analysis software.
47    
48    \subsubsection{utils/scripts}
49    
50    In the directory {\em utils/scripts} you will find {\em joinds} and {\em joinmds}:
51    these are perl scripts used from joining the multi-part files created by
52    MITgcm. {\bf Use {\em joinmds} always}. You will only need {\em joinds} if you
53    are working with output older than two years (prior to c23).
54    
55    \subsubsection{utils/matlab}
56    
57    In the directory {\em utils/matlab} you will find several Matlab scripts
58    (.m or dot-em files). The priniciple script is {\em rdmds.m} used for reading
59    the multi-part model output files in to matlab. Place the scripts in your
60    matlab path or change the path appropriately, then at the matlab prompt type:
61    \begin{verbatim}
62      >> help rdmds
63    \end{verbatim}
64    to get help on how to use rdmds.
65    
66    Another useful script scans the terminal output file for "monitor" information.
67    
68    Most other scripts are for working in the curvilinear coordinate systems which
69    as yet are unpublished and undocumented.
70    
71    \subsection{Pre-processing software}
72    
73    There is a suite of pre-processing software for intepolating bathymetry
74    and forcing data, written by Adcroft and Biastoch. At some point,
75    these will be made available for download. If you are in need of such
76    software, contact one of them.

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