\newcommand{\ctsim}{{\tt CTSim}}
\newcommand{\ctsimtext}{{\tt CTSimText}}
+\newcommand{\usage}{{\bf Usage}{\par}}
\newcommand{\commandref}[2]{\helpref{{\tt $\backslash$#1}}{#2}}%
\newcommand{\commandrefn}[2]{\helprefn{{\tt $\backslash$#1}}{#2}\index{#1}}%
\date{January 2001}%
}%
\winhelponly{\title{Manual for CTSim 3.0}%
-\author{by Kevin Rosenberg, M.D.\\$$\image{1cm;0cm}{logo-huge.bmp}$$}%
+\author{by Kevin Rosenberg, M.D.\\$$\image{3cm;3cm}{logo-huge.bmp}$$}%
}%
\makeindex%
\begin{document}%
\pagestyle{fancyplain}%
\bibliographystyle{plain}%
\pagenumbering{roman}%
+
\setheader{{\it CONTENTS}}{}{}{}{}{{\it CONTENTS}}%
\setfooter{\thepage}{}{}{}{}{\thepage}%
\tableofcontents%
OF LIABILITY, ARISING OUT OF OR IN CONNECTION WITH THE USE OR
PERFORMANCE OF THIS SOFTWARE.
-\chapter{Introduction}%
+\chapter{Introduction}\label{introduction}%
\pagenumbering{arabic}%
\setheader{{\it CHAPTER \thechapter}}{}{}{}{}{{\it CHAPTER \thechapter}}%
\setfooter{\thepage}{}{}{}{}{\thepage}%
+\winhelponly{$$\image{3cm;3cm}{logo-huge}$$}%
+
Computed Tomography is a technique for estimating the interior of an object
from measurement of radiation collected around the object. This radiation
can be either projected through or emitted from the object.
-\ctsim simulates the process of projecting X-rays through a phantom object.
-\ctsim can then reconstruct the interior of the object from the projections
+\rtfsp\ctsim\ simulates the process of projecting X-rays through a phantom object.
+\rtfsp\ctsim\ can then reconstruct the interior of the object from the projections
collected around the phantom object.
+The \ctsim\ package has two executable files: the graphical \helprefn{ctsim}{ctsim} and text \helprefn{ctsimtext}{ctsimtext} programs.
+
\chapter{Installation}\index{Installation}%
\setheader{{\it CHAPTER \thechapter}}{}{}{}{}{{\it CHAPTER \thechapter}}%
\setfooter{\thepage}{}{}{}{}{\thepage}%
-\section{Download}%\index{Installation,Download}%
+\section{Download}\label{download}\index{Installation,Download}%
The latest version of CTSim, plus source code, can be accessed from:
\section{Installing Windows Binary}\index{Installation,Windows}%
-\section{Build From Sources}%\index{Installation,Build}%
+\section{Build From Sources}\label{build}\index{Installation,Build}%
See the INSTALL file included in the source distribution for instructions.
-\section{Requirements}\index{Installation,Build,Requirements}%
+\section{Requirements}\label{installreq}\index{Installation,Requirements}%
\begin{itemize}\itemsep=0pt
\item zlib Library (optional)
\par Used for PNG file export.
\item wxWindows library (optional)
\par Used for platform-independent graphical interface. The graphical-shell
- program \ctsim requires this library.
+ program \ctsim\ requires this library.
\par www.wxwindows.org
\end{itemize}
-\chapter{ctsim - the Graphical User Interface}%\index{ctsim}%
+\chapter{ctsim - the Graphical User Interface}\label{ctsim}\index{ctsim}%
\setheader{{\it CHAPTER \thechapter}}{}{}{}{}{{\it CHAPTER \thechapter}}%
\setfooter{\thepage}{}{}{}{}{\thepage}%
Motif, and Microsoft Windows. It includes all of the functionality of
the command-line tool {\tt ctsimtext} as well as image processing and visualization features.
-\section{Usage}
-ctsim [OPTIONS] [files to open...]
+\ctsim\ can open projection files, image files, phantom definition files, and plotfiles.
-\ctsim can open projection files, image files, phantom definition files, and plotfiles.
+\usage
+ctsim [OPTIONS] [files to open...]
-\chapter{ctsimtext - The Command Line Interface}\index{ctsimtext}%
-\ctsimtext is a master shell for all of the command-line utilities.
+\chapter{ctsimtext}\label{ctsimtext}\index{ctsimtext}%
\setheader{{\it CHAPTER \thechapter}}{}{}{}{}{{\it CHAPTER \thechapter}}%
\setfooter{\thepage}{}{}{}{}{\thepage}%
-\section{Usage}%
+\ctsimtext\ is a master shell for all of the command-line utilities.
-\ctsimtext can be executed without any parameters. In that case, \ctsimtext
+\usage
+\ctsimtext\ can be executed without any parameters. In that case, \ctsimtext
offers a command-line to enter the function-names and their parameters. The output of the command is displayed. Further commands may be given to \ctsimtext. The shell is exited by the {\tt quit} command.
-\ctsimtext can also be called to execute a single command. This is especially useful for batch files containing multiple \ctsimtext commands. This is invoked by calling {\tt ctsimtext function-name parameters...}.
+\ctsimtext\ can also be called to execute a single command. This is especially useful for batch files containing multiple \ctsimtext\ commands. This is invoked by calling {\tt ctsimtext function-name parameters...}.
The following function names are available:
-\subsection{if1}\index{Programs,ctsimtext,if1}%
+\helprefn{if1}{if1}\par
+\helprefn{if2}{if2}\par
+\helprefn{ifexport}{ifexport}\par
+\helprefn{ifinfo}{ifinfo}\par
+\helprefn{phm2if}{phm2if}\par
+\helprefn{phm2pj}{phm2pj}\par
+\helprefn{pj2if}{pj2if}\par
+\helprefn{pjinfo}{pjinfo}\par
+\helprefn{pjrej}{pjrec}\par
+
+\subsection{if1}\label{if1}\index{ctsimtext,if1}%
Perfoms math functions on a single image.
-\subsubsection{Usage}%
+\usage
\begin{itemize}\itemsep=0pt
\item --invert
\item --log
\item --sqrt
\end{itemize}
-\subsection{if2}\index{Programs,ctsimtext,if2}%
+\subsection{if2}\label{if2}\index{ctsimtext,if2}%
Perfoms math functions on a two images.
-\subsubsection{Usage}%
+\usage
\begin{itemize}\itemsep=0pt
\item --add
\item --sub
\item --row-plot
\end{itemize}
-\subsection{ifinfo}\index{Programs,ctsimtext,ifinfo}%
-
-Displays information about an imagefile.
-\subsubsection{Usage}%
-\begin{itemize}\itemsep=0pt
- \item --labels
- \item --no-labels
- \item --stats
- \item --no-stats
- \item --help
-\end{itemize}
-
-\subsection{ifexport}\index{Programs,ctsimtext,ifexport}%
+\subsection{ifexport}\label{ifexport}\index{ctsimtext,ifexport}%
Export an imagefile to a standard graphics file.
-\subsubsection{Usage}%
+\usage
\begin{itemize}\itemsep=0pt
\item --format
\begin{itemize}\itemsep=0pt
\item --max
\end{itemize}
-\subsection{phm2pj}\index{Programs,ctsimtext,phm2pj}%
+\subsection{ifinfo}\label{ifinfo}\index{ctsimtext,ifinfo}%
+
+Displays information about an imagefile.
+
+\usage
+\begin{itemize}\itemsep=0pt
+ \item --labels
+ \item --no-labels
+ \item --stats
+ \item --no-stats
+ \item --help
+\end{itemize}
+
+\subsection{phm2pj}\label{phm2pj}\index{ctsimtext,phm2pj}%
Simulates collection of X-rays data (projections) around a phantom object.
-\subsubsection{Usage}%
+\usage
phm2pj projection-file-name number-of-detectors number-of-views [options...]
\begin{itemize}\itemsep=0pt
\item --phantom
The Herman phantom is taken with permission from Gabor Hermans 1980 book\cite{HERMAN80}. The Shepp-Logan phantom was published in 1974\cite{SHEPP74}.
-\subsection{phm2if}\index{Programs,ctsimtext,phm2if}%
+\subsection{phm2if}\label{phm2if}\index{ctsimtext,phm2if}%
Converts a geometric phantom object into an imagefile. The size of the
imagefile in pixels must be specified as well as the number of samples
to average per pixel.
-\subsubsection{Usage}%
+\usage
\begin{itemize}\itemsep=0pt
\item --nsamples
\end{itemize}
-\subsection{pj2if}\index{Programs,ctsimtext,pj2if}%
+\subsection{pj2if}\label{pj2if}\index{ctsimtext,pj2if}%
Convert a projection file into an imagefile.
-\subsubsection{Usage}%
+\usage
\begin{itemize}\itemsep=0pt
\end{itemize}
-\subsection{pjinfo}\index{Programs,ctsimtext,pjinfo}%
+\subsection{pjinfo}\label{pjinfo}\index{ctsimtext,pjinfo}%
Displays information about a projection file.
-\subsubsection{Usage}%
+\usage
\begin{itemize}\itemsep=0pt
\item --binaryheader
\item --binaryview
\item --dump
\end{itemize}
-\subsection{pjrec}\index{Programs,ctsimtext,pjrec}%
+\subsection{pjrec}\label{pjrec}\index{ctsimtext,pjrec}%
Reconstructs the interior of an object from a projection file.
-\subsubsection{Usage}%
-
-\subsubsection{Parameters}%
+\usage
\begin{itemize}\itemsep=0pt
- \item Filter
+ \item Filter \par
Selects which filter to apply to each projection. To
properly reconstruct an image, this filter should be multiplied
by the absolute value of distance from zero frequency.
\item abs_bandlimit
\item abs_cosine
\item abs_hamming
- \item abs_sinc
\end{itemize}
- \item Filter Parameter
- \par Sets the alpha level for Hamming
+ \item Filter Parameter \par
+ Sets the alpha level for Hamming
window. At setting of 0.54, this equals the Hanning window.
\item Filter Method
\item Preinterpolation Factor
\end{itemize}
-\chapter{The Web Browser CGI Interface}\index{Web Interface}%
+\chapter{The Web Browser CGI Interface}\label{webinterface}\index{Web Interface}%
\setheader{{\it CHAPTER \thechapter}}{}{}{}{}{{\it CHAPTER \thechapter}}%
\setfooter{\thepage}{}{}{}{}{\thepage}%
\section{Requirements}\index{Web Interface,Requirements}%
\begin{itemize}\itemsep=0pt
- \item For Web Interface
\begin{itemize}\itemsep=0pt
\item Apache or other CGI compatible web server
\item Perl (version 4.0 or higher)
\item A client web browser than can display PNG files. Most
- current web browswer do support PNG.
- \end{itemize}
-
+ current web browsers support PNG.
\end{itemize}
\newpage
\setfooter{\thepage}{}{}{}{}{\thepage}%
\printindex%
-\end{document}
+\end{document}%
+