-\documentstyle[a4,makeidx,verbatim,texhelp,fancyhea,mysober,mytitle]{report}%
+\documentclass[11pt]{report}%
%\input{psbox.tex}
+\usepackage{texhelp}
+\usepackage{fancyheadings}
+\usepackage{mysober}
+\usepackage{mytitle}
+\usepackage{verbatim}
+\usepackage{makeidx}
\usepackage{times}
\usepackage{hyperref}
-\newcommand{\ctsim}{{\it CTSim}}
-\newcommand{\ctsimtext}{{\it CTSimText}}
+\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}$$}%
+\htmlonly{$$\image{3cm;3cm}{logo-huge.gif}$$}%
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.
-\chapter{Installation}\index{Installation}%
-\setheader{{\it CHAPTER \thechapter}}{}{}{}{}{{\it CHAPTER \thechapter}}%
-\setfooter{\thepage}{}{}{}{}{\thepage}%
-
-\section{Download}%\index{Installation,Download}%
-
-The latest version of CTSim, plus source code, can be accessed from:
-
-\begin{verbatim}
-http://www.ctsim.org
-ftp://ftp.ctsim.org
-\end{verbatim}
-
-It is available in Windows 95/NT/2000 and Linux GUI versions and non-GUI versions.
-
-\section{Installing Linux RPM}\index{Installation,Linux}%
-
-\section{Installing Windows Binary}\index{Installation,Windows}%
-
-\section{Build From Sources}%\index{Installation,Build}%
-
-See the INSTALL file included in the source distribution for instructions.
-
-\section{Requirements}\index{Installation,Build,Requirements}%
- \item Building CTSim
- \begin{itemize}\itemsep=0pt
- \item zlib Library (optional)
- \par Used for PNG file export.
-
- \item libpng Library (optional)
- \par Used for PNG file export.
- \par www.libpng.org
-
- \item FFTW library (optional)
- \par Used for frequency-based filtering and fourier transformations of images.
- \par www.fftw.org
-
- \item readline library (optional)
- /par Used for {/ctsimtext} interactive shell.
-
- \item dmalloc library (optional)
- \par Used for debugging memory allocation
- \par www.dmalloc.com
-
- \item wxWindows library (optional) \par Used for
- platform-independent graphical interface. The graphical-shell
- program \ctsim requires this library. \par www.wxwindows.org
-
- \end{itemize}
-\end{itemize}
-
-\chapter{ctsim - the Graphical User Interface}%\index{ctsim}%
-\setheader{{\it CHAPTER \thechapter}}{}{}{}{}{{\it CHAPTER \thechapter}}%
-\setfooter{\thepage}{}{}{}{}{\thepage}%
-
-\ctsim\ is the graphical shell for the CTSim project. It is
-written using the wxLibrary for cross-platform compatibility with GTK,
-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.
-
-\chapter{ctsimtext - The Command Line Interface}\index{ctsimtext}%
-\ctsimtext is a master shell for all of the command-line utilities.
-\setheader{{\it CHAPTER \thechapter}}{}{}{}{}{{\it CHAPTER \thechapter}}%
-\setfooter{\thepage}{}{}{}{}{\thepage}%
-
-\section{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...}.
-
-The following function names are available:
-
-\subsection{if1}\index{Programs,ctsimtext,if1}%
-Perfoms math functions on a single image.
-
-\subsubsection{Usage}%
-\begin{itemize}\itemsep=0pt
- \item --invert
- \item --log
- \item --exp
- \item --sqr
- \item --sqrt
-\end{itemize}
+The \ctsim package has two executable files: the graphical \helprefn{ctsim}{ctsim} and text \helprefn{ctsimtext}{ctsimtext} programs.
-\subsection{if2}\index{Programs,ctsimtext,if2}%
-Perfoms math functions on a two images.
+\include{ctsim-concepts}
-\subsubsection{Usage}%
-\begin{itemize}\itemsep=0pt
- \item --add
- \item --sub
- \item --mul
- \item --comp
- \item --column-plot
- \item --row-plot
-\end{itemize}
+\include{ctsim-install}
-\subsection{ifinfo}\index{Programs,ctsimtext,ifinfo}%
+\include{ctsim-gui}
-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}
+\include{ctsim-textui}
-\subsection{ifexport}\index{Programs,ctsimtext,ifexport}%
-Export an imagefile to a standard graphics file.
-
-\subsubsection{Usage}%
-\begin{itemize}\itemsep=0pt
- \item --format
- \begin{itemize}\itemsep=0pt
- \item --pgm
- \item --pgmasc
- \item --png
- \item --png16
- \end{itemize}
- \item --center
- \begin{itemize}\itemsep=0pt
- \item median
- \item mode
- \item mean
- \end{itemize}
- \item --auto
- \begin{itemize}\itemsep=0pt
- \item --full
- \item --std0.1
- \item --std0.5
- \item --std1
- \item --std2
- \item --std3
- \end{itemize}
- \item --scale
- \item --min
- \item --max
-\end{itemize}
-
-\subsection{phm2pj}\index{Programs,ctsimtext,phm2pj}%
-Simulates collection of X-rays data (projections) around a phantom object.
-
-\subsubsection{Usage}%
-phm2pj projection-file-name number-of-detectors number-of-views [options...]
-\begin{itemize}\itemsep=0pt
- \item --phantom
- Select a standard phantom
- \begin{itemize}\itemsep=0pt
- \item herman
- \item herman-b
- \item shepp-logan
- \item shepp-logan-b
- \end{itemize}
-
- \item --phmfile
- Load a phantom definition definition
-
- \item --geometry
- \begin{itemize}\itemsep=0pt
- \item parallel
- \item equiangular
- \item equilinear
- \end{itemize}
-
- \item --nray
- Number of samples per each detector
-
- \item --rotangle
- Sets the rotation amount as a multiple of pi. For parallel geometries use
-a rotation angle of 1 and for equilinear and equiangular geometries use a rotation angle of 2.
-
- \item --field-of-view
- Sets the field of view as a ratio of the diameter of the phantom. For parallel geometries, using a value of 1.0 is fine. For other geometies, this should be at least 1.3 to avoid artifacts.
-
- \item --focal-length
- Sets the distance of the radiation source and detectors from the center of the object as a ratio of the radius of the object. For parallel geometries, a value of 1.0 is fine. For other geometries, this should be at least 2.0 to avoid artifacts.
-\end{itemize}
-
-\subsection{phm2if}\index{Programs,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}%
-\begin{itemize}\itemsep=0pt
- \item --nsamples
-\end{itemize}
-
-\subsection{pj2if}\index{Programs,ctsimtext,pj2if}%
-Convert a projection file into an imagefile.
-
-\subsubsection{Usage}%
-\begin{itemize}\itemsep=0pt
-\end{itemize}
-
-\subsection{pjinfo}\index{Programs,ctsimtext,pjinfo}%
-Displays information about a projection file.
-
-\subsubsection{Usage}%
-\begin{itemize}\itemsep=0pt
- \item --binaryheader
- \item --binaryview
- \item --startview
- \item --endview
- \item --dump
-\end{itemize}
-
-\subsection{pjrec}\index{Programs,ctsimtext,pjrec}%
-Reconstructs the interior of an object from a projection file.
-
-\subsubsection{Usage}%
-
-\subsubsection{Parameters}%
-\begin{itemize}\itemsep=0pt
- \item Filter
- 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.
- \begin{itemize}\itemsep=0pt
- \item abs_bandlimit
- \item abs_cosine
- \item abs_hamming
- \item abs_sinc
- \end{itemize}
-
- \item Filter Parameter
- \par Sets the alpha level for Hamming
- window. At setting of 0.54, this equals the Hanning window.
-
- \item Filter Method
- \begin{itemize}\itemsep=0pt
- \item convolution
- \item fourier
- \item fourier_table
- \item fftw
- \item rfftw
- \end{itemize}
-
- \item Filter Generation
- \begin{itemize}\itemsep=0pt
- \item direct
- \item inverse_fourier
- \end{itemize}
-
- \item Interpolation
- \begin{itemize}\itemsep=0pt
- \item nearest
- \item linear
- \end{itemize}
-
- \item Backprojection
- \begin{itemize}\itemsep=0pt
- \item trig
- \item table
- \item diff
- \item diff2
- \item idiff2
- \item idiff3
- \end{itemize}
-
- \item Zeropad
- \item Preinterpolation Factor
-\end{itemize}
-
-\chapter{The Web Browser CGI Interface}\index{Web Interface}%
-\setheader{{\it CHAPTER \thechapter}}{}{}{}{}{{\it CHAPTER \thechapter}}%
-\setfooter{\thepage}{}{}{}{}{\thepage}%
-
-\section{Overview}\index{Web Interface,Overview}%
-The CGI program {\tt ctsim.cgi} takes projections of a standard
-phantom object, performs reconstruction, and then compares the
-rasterized phantom object with the reconstruction. The comparison is
-performed both visually by an image subtraction as well as by standard
-statistics as described by Herman\cite{HERMAN80}.
-
-\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}
-
- \end{itemize}
+\include{ctsim-web}
\newpage
-\nocite{KAK87}
-\nocite{PRESS82}
-\nocite{SHEPP74}
-
\bibliographystyle{plain}
\bibliography{ctsim}
\addcontentsline{toc}{chapter}{Bibliography}
\setfooter{\thepage}{}{}{}{}{\thepage}%
\addcontentsline{toc}{chapter}{Index}
-\setheader{{\it INDEX}}{}{}{}{}{{\it INDEX}}%
-\setfooter{\thepage}{}{}{}{}{\thepage}%
-\printindex%
+\setheader{{\it INDEX}}{}{}{}{}{{\it INDEX}} %
+\setfooter{\thepage}{}{}{}{}{\thepage} %
+\printindex %
-\end{document}
+\end{document}%
+
projects / ctsim.git / blobdiff