r418: no message

[ctsim.git] / doc / tex2rtf / ctsim.tex

diff --git a/doc/tex2rtf/ctsim.tex b/doc/tex2rtf/ctsim.tex
index 1b15b07280995a0682b8b377cf8f0af49efa7ba9..05ddbf77c5e10914bc2ec6a801e06973a2f9eadd 100644 (file)
--- a/doc/tex2rtf/ctsim.tex
+++ b/doc/tex2rtf/ctsim.tex
@@ -5,7 +5,7 @@
 
 \newcommand{\ctsim}{{\tt CTSim}}
 \newcommand{\ctsimtext}{{\tt CTSimText}}
 
 \newcommand{\ctsim}{{\tt CTSim}}
 \newcommand{\ctsimtext}{{\tt CTSimText}}

-\newcommand{\usage}{{\bf Usage \par}}
+\newcommand{\usage}{{\bf Usage}{\par}}

 
 \newcommand{\commandref}[2]{\helpref{{\tt $\backslash$#1}}{#2}}%
 \newcommand{\commandrefn}[2]{\helprefn{{\tt $\backslash$#1}}{#2}\index{#1}}%
 
 \newcommand{\commandref}[2]{\helpref{{\tt $\backslash$#1}}{#2}}%
 \newcommand{\commandrefn}[2]{\helprefn{{\tt $\backslash$#1}}{#2}\index{#1}}%


@@ -20,7 +20,7 @@
 \date{January 2001}%
 }%
 \winhelponly{\title{Manual for CTSim 3.0}%
 \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}%
 }%
 \makeindex%
 \begin{document}%


@@ -60,7 +60,7 @@ PERFORMANCE OF THIS SOFTWARE.
 \setheader{{\it CHAPTER \thechapter}}{}{}{}{}{{\it CHAPTER \thechapter}}%
 \setfooter{\thepage}{}{}{}{}{\thepage}%
 
 \setheader{{\it CHAPTER \thechapter}}{}{}{}{}{{\it CHAPTER \thechapter}}%
 \setfooter{\thepage}{}{}{}{}{\thepage}%
 

-\winhelponly{\image{1cm;0cm}{logo-huge.bmp}\par}%
+\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 
 
 Computed Tomography is a technique for estimating the interior of an object 
 from measurement of radiation collected around the object. This radiation 


@@ -69,6 +69,8 @@ can be either projected through or emitted from the object.
 \rtfsp\ctsim\ can then reconstruct the interior of the object from the projections
 collected around the 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}%
 \chapter{Installation}\index{Installation}%
 \setheader{{\it CHAPTER \thechapter}}{}{}{}{}{{\it CHAPTER \thechapter}}%
 \setfooter{\thepage}{}{}{}{}{\thepage}%


@@ -88,11 +90,11 @@ It is available in Windows 95/NT/2000 and Linux GUI versions and non-GUI version
 
 \section{Installing Windows Binary}\index{Installation,Windows}%
 
 
 \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.
 
 
 See the INSTALL file included in the source distribution for instructions.
 

-\section{Requirements}\index{Installation,Requirements}%
+\section{Requirements}\label{installreq}\index{Installation,Requirements}%

   \begin{itemize}\itemsep=0pt
   \item zlib Library (optional)
         \par Used for PNG file export.
   \begin{itemize}\itemsep=0pt
   \item zlib Library (optional)
         \par Used for PNG file export.


@@ -130,16 +132,16 @@ the command-line tool {\tt ctsimtext} as well as image processing and visualizat
 
 \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\
+\usage

 ctsim [OPTIONS] [files to open...]
 
 ctsim [OPTIONS] [files to open...]
 

-\chapter{ctsimtext}\index{ctsimtext}%
+\chapter{ctsimtext}\label{ctsimtext}\index{ctsimtext}%

 \setheader{{\it CHAPTER \thechapter}}{}{}{}{}{{\it CHAPTER \thechapter}}%
 \setfooter{\thepage}{}{}{}{}{\thepage}%
 
 \ctsimtext\ is a master shell for all of the command-line utilities. 
 
 \setheader{{\it CHAPTER \thechapter}}{}{}{}{}{{\it CHAPTER \thechapter}}%
 \setfooter{\thepage}{}{}{}{}{\thepage}%
 
 \ctsimtext\ is a master shell for all of the command-line utilities. 
 

-\usage\
+\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 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.
 


@@ -147,10 +149,20 @@ offers a command-line to enter the function-names and their parameters. The outp
 
 The following function names are available:
 
 
 The following function names are available:
 

+\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.
 
 \subsection{if1}\label{if1}\index{ctsimtext,if1}%
 Perfoms math functions on a single image.
 

-\usage\
+\usage

 \begin{itemize}\itemsep=0pt
   \item --invert
   \item --log
 \begin{itemize}\itemsep=0pt
   \item --invert
   \item --log


@@ -159,10 +171,10 @@ Perfoms math functions on a single image.
   \item --sqrt
 \end{itemize}
 
   \item --sqrt
 \end{itemize}
 

-\subsection{if2}\index{ctsimtext,if2}%
+\subsection{if2}\label{if2}\index{ctsimtext,if2}%

 Perfoms math functions on a two images.
 
 Perfoms math functions on a two images.
 

-\usage\
+\usage

 \begin{itemize}\itemsep=0pt
   \item --add
   \item --sub
 \begin{itemize}\itemsep=0pt
   \item --add
   \item --sub


@@ -172,23 +184,10 @@ Perfoms math functions on a two images.
   \item --row-plot
 \end{itemize}
 
   \item --row-plot
 \end{itemize}
 

-\subsection{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{ifexport}\index{ctsimtext,ifexport}%
+\subsection{ifexport}\label{ifexport}\index{ctsimtext,ifexport}%

 Export an imagefile to a standard graphics file.
 
 Export an imagefile to a standard graphics file.
 

-\usage\
+\usage

 \begin{itemize}\itemsep=0pt
   \item --format
   \begin{itemize}\itemsep=0pt
 \begin{itemize}\itemsep=0pt
   \item --format
   \begin{itemize}\itemsep=0pt


@@ -217,10 +216,23 @@ Export an imagefile to a standard graphics file.
   \item --max
 \end{itemize}
 
   \item --max
 \end{itemize}
 

-\subsection{phm2pj}\index{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.
 
 Simulates collection of X-rays data (projections) around a phantom object.
 

-\usage\
+\usage

 phm2pj projection-file-name number-of-detectors number-of-views [options...]
 \begin{itemize}\itemsep=0pt
   \item --phantom
 phm2pj projection-file-name number-of-detectors number-of-views [options...]
 \begin{itemize}\itemsep=0pt
   \item --phantom


@@ -258,27 +270,27 @@ a rotation angle of 1 and for equilinear and equiangular geometries use a rotati
 
 The Herman phantom is taken with permission from Gabor Hermans 1980 book\cite{HERMAN80}. The Shepp-Logan phantom was published in 1974\cite{SHEPP74}.
 
 
 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{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.
 
 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.
 

-\usage\
+\usage

 \begin{itemize}\itemsep=0pt
   \item --nsamples
 \end{itemize}
 
 \begin{itemize}\itemsep=0pt
   \item --nsamples
 \end{itemize}
 

-\subsection{pj2if}\index{ctsimtext,pj2if}%
+\subsection{pj2if}\label{pj2if}\index{ctsimtext,pj2if}%

 Convert a projection file into an imagefile.
 
 Convert a projection file into an imagefile.
 

-\usage\
+\usage

 \begin{itemize}\itemsep=0pt
 \end{itemize}
 
 \begin{itemize}\itemsep=0pt
 \end{itemize}
 

-\subsection{pjinfo}\index{ctsimtext,pjinfo}%
+\subsection{pjinfo}\label{pjinfo}\index{ctsimtext,pjinfo}%

 Displays information about a projection file.
 
 Displays information about a projection file.
 

-\usage\
+\usage

 \begin{itemize}\itemsep=0pt
   \item --binaryheader
   \item --binaryview
 \begin{itemize}\itemsep=0pt
   \item --binaryheader
   \item --binaryview


@@ -287,12 +299,12 @@ Displays information about a projection file.
   \item --dump
 \end{itemize}
 
   \item --dump
 \end{itemize}
 

-\subsection{pjrec}\index{ctsimtext,pjrec}%
+\subsection{pjrec}\label{pjrec}\index{ctsimtext,pjrec}%

 Reconstructs the interior of an object from a projection file.
 
 Reconstructs the interior of an object from a projection file.
 

-\usage\
+\usage

 \begin{itemize}\itemsep=0pt
 \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.
   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.


@@ -302,8 +314,8 @@ Reconstructs the interior of an object from a projection file.
     \item abs_hamming
   \end{itemize}
 
     \item abs_hamming
   \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
   window. At setting of 0.54, this equals the Hanning window.
 
   \item Filter Method


@@ -341,7 +353,7 @@ Reconstructs the interior of an object from a projection file.
   \item Preinterpolation Factor
 \end{itemize}
 
   \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}%
 
 \setheader{{\it CHAPTER \thechapter}}{}{}{}{}{{\it CHAPTER \thechapter}}%
 \setfooter{\thepage}{}{}{}{}{\thepage}%
 


@@ -376,4 +388,5 @@ statistics as described by Herman\cite{HERMAN80}.
 \setfooter{\thepage}{}{}{}{}{\thepage}%
 \printindex%
 
 \setfooter{\thepage}{}{}{}{}{\thepage}%
 \printindex%
 

-\end{document} 
+\end{document}%
+