chap_OBS.tex

enact2fb.exe outputfile inputfile1 inputfile2 ...
\end{cmds}

%% =================================================================================================
\subsubsection{fbcomb}

The program fbcomb combines multiple feedback files produced by individual processors in
an MPI run of \NEMO\ into a single feedback file.
It is called in the following way:

\begin{cmds}
fbcomb.exe outputfile inputfile1 inputfile2 ...
\end{cmds}

%% =================================================================================================
\subsubsection{fbmatchup}

The program fbmatchup will match observations from two feedback files.
It is called in the following way:

\begin{cmds}
fbmatchup.exe outputfile inputfile1 varname1 inputfile2 varname2 ...
\end{cmds}

%% =================================================================================================
\subsubsection{fbprint}

The program fbprint will print the contents of a feedback file or files to standard output.
Selected information can be output using optional arguments.
It is called in the following way:

\begin{cmds}
fbprint.exe [options] inputfile

options:
     -b            shorter output
     -q            Select observations based on QC flags
     -Q            Select observations based on QC flags
     -B            Select observations based on QC flags
     -u            unsorted
     -s ID         select station ID
     -t TYPE       select observation type
     -v NUM1-NUM2  select variable range to print by number
                      (default all)
     -a NUM1-NUM2  select additional variable range to print by number
                      (default all)
     -e NUM1-NUM2  select extra variable range to print by number
                      (default all)
     -d            output date range
     -D            print depths
     -z            use zipped files
\end{cmds}

%% =================================================================================================
\subsubsection{fbsel}

The program fbsel will select or subsample observations.
It is called in the following way:

\begin{cmds}
fbsel.exe <input filename> <output filename>
\end{cmds}

%% =================================================================================================
\subsubsection{fbstat}

The program fbstat will output summary statistics in different global areas into a number of files.
It is called in the following way:

\begin{cmds}
fbstat.exe [-nmlev] <filenames>
\end{cmds}

%% =================================================================================================
\subsubsection{fbthin}

The program fbthin will thin the data to 1 degree resolution.
The code could easily be modified to thin to a different resolution.
It is called in the following way:

\begin{cmds}
fbthin.exe inputfile outputfile
\end{cmds}

%% =================================================================================================
\subsubsection{sla2fb}

The program sla2fb will convert an AVISO SLA format file to feedback format.
It is called in the following way:

\begin{cmds}
sla2fb.exe [-s type] outputfile inputfile1 inputfile2 ...

Option:
     -s            Select altimeter data_source
\end{cmds}

%% =================================================================================================
\subsubsection{vel2fb}

The program vel2fb will convert TAO/PIRATA/RAMA currents files to feedback format.
It is called in the following way:

\begin{cmds}
vel2fb.exe outputfile inputfile1 inputfile2 ...
\end{cmds}

%% =================================================================================================
\subsection{Building the obstools}

To build the obstools use in the tools directory use ./maketools -n OBSTOOLS -m [ARCH].

%% =================================================================================================
\subsection{Dataplot}

An IDL program called dataplot is included which uses a graphical interface to
visualise observations and feedback files. Note a similar package has recently developed in python (also called dataplot) which does some of the same things that the IDL dataplot does. Please contact the authors of the this chapter if you are interested in this.

It is possible to zoom in, plot individual profiles and calculate some basic statistics.
To plot some data run IDL and then:

\begin{verbatim}
IDL> dataplot, "filename"
\end{verbatim}

To read multiple files into dataplot,
for example multiple feedback files from different processors or from different days,
the easiest method is to use the spawn command to generate a list of files which can then be passed to dataplot.

\begin{verbatim}
IDL> spawn, 'ls profb*.nc', files
IDL> dataplot, files
\end{verbatim}

\autoref{fig:OBS_dataplotmain} shows the main window which is launched when dataplot starts.
This is split into three parts.
At the top there is a menu bar which contains a variety of drop down menus.
Areas - zooms into prespecified regions;
plot - plots the data as a timeseries or a T-S diagram if appropriate;
Find - allows data to be searched;
Config - sets various configuration options.

The middle part is a plot of the geographical location of the observations.
This will plot the observation value, the model background value or observation minus background value depending on
the option selected in the radio button at the bottom of the window.
The plotting colour range can be changed by clicking on the colour bar.
The title of the plot gives some basic information about the date range and depth range shown,
the extreme values, and the mean and RMS values.
It is possible to zoom in using a drag-box.
You may also zoom in or out using the mouse wheel.

The bottom part of the window controls what is visible in the plot above.
There are two bars which select the level range plotted (for profile data).
The other bars below select the date range shown.
The bottom of the figure allows the option to plot the mean, root mean square, standard deviation or
mean square values.
As mentioned above you can choose to plot the observation value, the model background value or
observation minus background value.
The next group of radio buttons selects the map projection.
This can either be regular longitude latitude grid, or north or south polar stereographic.
The next group of radio buttons will plot bad observations, switch to salinity and
plot density for profile observations.
The rightmost group of buttons will print the plot window as a postscript, save it as png, or exit from dataplot.

\begin{figure}
  \centering
  \includegraphics[width=0.66\textwidth]{OBS_dataplot_main}
  \caption{Main window of dataplot}
  \label{fig:OBS_dataplotmain}
\end{figure}

If a profile point is clicked with the mouse button a plot of the observation and background values as
a function of depth (\autoref{fig:OBS_dataplotprofile}).

\begin{figure}
  \centering
  \includegraphics[width=0.66\textwidth]{OBS_dataplot_prof}
  \caption[Profile plot from dataplot]{
    Profile plot from dataplot produced by right clicking on a point in the main window}
  \label{fig:OBS_dataplotprofile}
\end{figure}

\subinc{\input{../../global/epilogue}}

\end{document}