\documentclass[letterpaper]{book}
\usepackage{makeidx}
\usepackage{fancyhdr}
\usepackage{graphicx}
\usepackage{multicol}
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\usepackage{textcomp}
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\usepackage[ps2pdf,
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\usepackage[pdftex,
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\usepackage{doxygen}
\makeindex
\setcounter{tocdepth}{1}
\renewcommand{\footrulewidth}{0.4pt}
\begin{document}
\begin{titlepage}
\vspace*{7cm}
\begin{center}
{\Large Reference Manual}\\
\vspace*{1cm}
{\large Generated by Doxygen 1.4.4}\\
\vspace*{0.5cm}
{\small Sun Jun 14 02:16:59 2009}\\
\end{center}
\end{titlepage}
\clearemptydoublepage
\pagenumbering{roman}
\tableofcontents
\clearemptydoublepage
\pagenumbering{arabic}
\chapter{CMX Generated Documentation }
\label{index}\hypertarget{index}{}\input{index}
\chapter{Directory Hierarchy}
\input{dirs}
\chapter{Data Structure Index}
\input{annotated}
\chapter{File Index}
\input{files}
\chapter{Directory Documentation}
\input{dir_000002}
\include{dir_000000}
\include{dir_000001}
\include{dir_000007}
\include{dir_000005}
\include{dir_000003}
\include{dir_000004}
\include{dir_000008}
\include{dir_000006}
\chapter{Data Structure Documentation}
\input{struct__QLRA__aemStats}
\include{struct__QLRA__aemTrgStats}
\include{struct__QLRA__arcErrStats}
\include{struct__QLRA__blkDesc}
\include{struct__QLRA__cccStats}
\include{struct__QLRA__cmdStats}
\include{struct__QLRA__cmptDesc}
\include{struct__QLRA__cntrStats}
\include{struct__QLRA__cruStats}
\include{struct__QLRA__ebmStats}
\include{struct__QLRA__ebmStats__V3}
\include{struct__QLRA__esrData}
\include{struct__QLRA__fifoStats}
\include{struct__QLRA__gemStats}
\include{struct__QLRA__gemStats__V1}
\include{struct__QLRA__gemStats__V2}
\include{struct__QLRA__pduStats}
\include{struct__QLRA__rcvStats}
\include{struct__QLRA__regData}
\include{struct__QLRA__regSpec}
\include{struct__QLRA__stats}
\include{struct__QLRA__stats__V1}
\include{struct__QLRA__stats__V2}
\include{struct__QLRA__stats__V3}
\include{struct__QLRA__tccStats}
\include{struct__QLRA__temStats}
\include{struct__QLRA__ticStats}
\include{struct__QLRA__trcvStats}
\include{struct__QLRA__xmtStats}
\chapter{File Documentation}
\input{QLRA_8h}
\include{QLRA__disp_8c}
\include{QLRA__msgs_8c}
\include{QLRA__msgs_8h}
\include{QLRA__p_8h}
\include{QLRA__read_8c}
\printindex
\end{document}