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[ctsim.git] / doc / ctsim-gui.tex

diff --git a/doc/ctsim-gui.tex b/doc/ctsim-gui.tex
index a790baac9839ff0ee9e9f8b81f20aab206fee222..9436faf3e712ebe90b5c997b5c70d5fd8cfea3a3 100644 (file)
--- a/doc/ctsim-gui.tex
+++ b/doc/ctsim-gui.tex
@@ -1,9 +1,9 @@
 \chapter{The Graphical User Interface}\label{ctsim}\index{ctsim}%
 \chapter{The Graphical User Interface}\label{ctsim}\index{ctsim}%

-\setheader{{\it CHAPTER \thechapter}}{}{}{}{}{{\it CHAPTER \thechapter}}%
+\setheader{{\it CHAPTER \thechapter}}{}{}{\ctsimheadtitle}{}{{\it CHAPTER \thechapter}}%

 \ctsimfooter%
 
 
 \ctsimfooter%
 
 

-\section{Overview}
+\section{Overview}\index{Graphical shell}

 \ctsim\ is the graphical shell for the CTSim project. It utilizes
 using the \urlref{wxWindows}{http://www.wxwindows.org} library for
 cross-platform compatibility. The graphical shell is compatible
 \ctsim\ is the graphical shell for the CTSim project. It utilizes
 using the \urlref{wxWindows}{http://www.wxwindows.org} library for
 cross-platform compatibility. The graphical shell is compatible


@@ -18,7 +18,7 @@ automatically open. \ctsim\ can open projection files, image
 files, phantom files, and plot files.
 
 
 files, phantom files, and plot files.
 
 

-\section{File Types Support}
+\section{File Types Support}\index{File types}

 
 Phantom and plot files are stored as ASCII text. In contrast,
 image and projection files are stored in binary format.
 
 Phantom and plot files are stored as ASCII text. In contrast,
 image and projection files are stored in binary format.


@@ -62,7 +62,27 @@ files for easy cross-platform support.
 These commands are present on the menus for all of the windows of
 \ctsim.
 
 These commands are present on the menus for all of the windows of
 \ctsim.
 

-\subsection{Preferences...}
+\subsection{Create Phantom...}\index{Create phantom dialog}
+This command brings up a dialog box showing the phantoms that are pre-programmed
+into \ctsim. After selecting one of these phantoms, the new window with that
+phantom will be generated. The pre-programmed phantoms are:
+
+\begin{description}\itemsep=0pt
+\item[Herman] The Herman head phantom\cite{HERMAN80}
+    \item[Shepp-Logan] The head phantom of Shepp \& Logan\cite{SHEPP74}
+\item[Unit pulse] A phantom that has a value of \texttt{1} for the
+center of the phantom and \texttt{0} everywhere else.
+\end{description}
+
+\subsection{Create Filter...}\index{Create filter dialog}
+This command brings up a dialog box showing the pre-programmed filters
+of \ctsim. This command will create a 2-dimensional image of the selected filter.
+The center of the filter is at the center of the image.
+
+These filters can be created in their natural frequency domain or in their spatial domain.
+
+
+\subsection{Preferences...}\index{Preferences}

 This command displays a dialog box that allows users to control
 the behavior of \ctsim. These options are saved across \ctsim sessions.
 Under Microsoft Windows environments, they are stored in the registry.
 This command displays a dialog box that allows users to control
 the behavior of \ctsim. These options are saved across \ctsim sessions.
 Under Microsoft Windows environments, they are stored in the registry.


@@ -112,7 +132,7 @@ Displays the properties of a phantom which includes:
 \item A list of all component phantom elements
 \end{itemize}
 
 \item A list of all component phantom elements
 \end{itemize}
 

-\subsection{Rasterize Dialog}
+\subsection{Rasterize Dialog}\index{Rasterize}

 This creates an image file from a phantom. Technically, it
 converts the phantom from a vector (infinite resolution) object
 into a 2-dimension array of floating-point pixels. The parameters
 This creates an image file from a phantom. Technically, it
 converts the phantom from a vector (infinite resolution) object
 into a 2-dimension array of floating-point pixels. The parameters


@@ -128,7 +148,7 @@ per pixel in both the x and y directions. For example, if the
 pixel in the image file 9 samples (3 x 3) are averaged.}
 \end{twocollist}
 
 pixel in the image file 9 samples (3 x 3) are averaged.}
 \end{twocollist}
 

-\subsection{Projection Dialog}
+\subsection{Projection Dialog}\index{Projection collection}

 This creates a projection file from a phantom. The options
 available when collecting projections are:
 
 This creates a projection file from a phantom. The options
 available when collecting projections are:
 


@@ -182,7 +202,7 @@ Properties of image files include
   \item Image file labels
 \end{itemize}
 
   \item Image file labels
 \end{itemize}
 

-\subsection{File - Export}
+\subsection{File - Export}\index{Image export}

 This command allows for exporting image files to a standard
 graphics file format. This is helpful when you want to take an
 image and import it into another application. The current
 This command allows for exporting image files to a standard
 graphics file format. This is helpful when you want to take an
 image and import it into another application. The current


@@ -260,7 +280,7 @@ include:
 \item Color scale
 \end{itemize}
 
 \item Color scale
 \end{itemize}
 

-\subsection{Filter}
+\subsection{Filter}\index{Image filter}

 These commands filter and modify the image.
 
 \subsubsection{Arithmetic}
 These commands filter and modify the image.
 
 \subsubsection{Arithmetic}


@@ -304,12 +324,13 @@ The displayed properties include:
 \item The variables used when generating the projections from the phantom
 \end{itemize}
 
 \item The variables used when generating the projections from the phantom
 \end{itemize}
 

-\subsection{Process - Convert Polar Dialog}\label{convertpolardialog}
-The parameters are \texttt{xsize}, \texttt{ysize}, and \texttt{interpolation}.
-The \texttt{xsize} and \texttt{ysize} parameters set the size of the
-resulting image file. The \texttt{interpolation} parameter selects the
-interpolation method. Currently, the \texttt{bilinear} option provides
-the highest quality interpolation.
+\subsection{Process - Convert Polar Dialog}\label{convertpolardialog}\index{Polar conversion}
+The parameters are \texttt{xsize}, \texttt{ysize}, and
+\texttt{interpolation}. The \texttt{xsize} and \texttt{ysize}
+parameters set the size of the resulting image file. The
+\texttt{interpolation} parameter selects the interpolation method.
+Currently, the \texttt{bilinear} option provides the highest
+quality interpolation.

 
 \subsection{Process - Convert FFT Polar Dialog}
 The parameters for this option are the same as \helprefn{Convert
 
 \subsection{Process - Convert FFT Polar Dialog}
 The parameters for this option are the same as \helprefn{Convert


@@ -317,7 +338,7 @@ Polar Dialog}{convertpolardialog}. For this command, though, the
 projections are Fourier transformed prior to conversion to polar
 image.
 
 projections are Fourier transformed prior to conversion to polar
 image.
 

-\subsection{Reconstruct - Filtered Backprojection Dialog}
+\subsection{Reconstruct - Filtered Backprojection Dialog}\index{Reconstruction dialog}

 This dialog sets the parameters for reconstructing an image from projections
 using the Filtered Backprojection technique.
 
 This dialog sets the parameters for reconstructing an image from projections
 using the Filtered Backprojection technique.
 


@@ -384,7 +405,7 @@ technique. A setting of \texttt{idiff} is optimal.
 \twocolitem{\textbf{Filter Generation}}{Selects the filter
 generation. With convolution, \texttt{direct} is the proper method
 to select. With any of the frequency methods,
 \twocolitem{\textbf{Filter Generation}}{Selects the filter
 generation. With convolution, \texttt{direct} is the proper method
 to select. With any of the frequency methods,

-\texttt{inverse-fourier}is the best method.
+\texttt{inverse-fourier} is the best method.

 \begin{itemize}\itemsep=0pt
 \item direct
 \item inverse-fourier
 \begin{itemize}\itemsep=0pt
 \item direct
 \item inverse-fourier


@@ -398,11 +419,22 @@ frequency-based filtering. A setting of \texttt{1} is optimal.}
 
 \section{Plot Menus}
 \subsection{File - Properties}
 
 \section{Plot Menus}
 \subsection{File - Properties}

-The displayed properties include
+The displayed properties include the number of curves in the plot
+and the number of points per curve. Additionally, the EZPlot
+commands used to format the plot are displayed.

 
 \subsection{View Menu}
 These commands set the scaling for the y-axis. They are analogous
 to the options used for setting the intensity scale for images.
 
 \subsection{View Menu}
 These commands set the scaling for the y-axis. They are analogous
 to the options used for setting the intensity scale for images.

+

 \subsubsection{Set}
 \subsubsection{Set}

+This command sets the upper and lower limits for the y-axis.
+

 \subsubsection{Auto}
 \subsubsection{Auto}

+This command automatically sets the upper and lower limits for the
+y-axis. Please refer to the \texttt{View - Auto} documentation for
+image files for the details.
+

 \subsubsection{Full}
 \subsubsection{Full}

+The command resets the upper and lower limits of the y-axis to the
+minimum and maximum values of the curves.