main.tex

% section numbers 5 levels deep
\setcounter{secnumdepth}{5}

\begin{document}
\pagestyle{fancy}

% start text
\setcounter{page}{1}

%%% define header and footer
\virtioheaderfooter

%%% define header an footer for chapter title pages
\fancypagestyle{plain}{\fancyhf{}\virtioheaderfooter}

% title page
\input{title.tex} 

% ToC
\setcounter{page}{4}
\setcounter{tocdepth}{4}
\renewcommand{\contentsname}{Table of Contents}
\addtocontents{toc}{\protect\virtioheaderfooter}
\tableofcontents
\newpage

%%% line numbers?
%\linenumbers

% introduction
\input{introduction.tex} 

\input{content.tex}
% Conformance
\input{conformance.tex}

% appendix
\appendix
\def\@chapapp{\appendixname}

\input{headerfile.tex}

\input{newdevice.tex}

\input{newtransport.tex}

% acknowledgements
\input{acknowledgements.tex} 

% draft change log
\input{changelog.tex} 

\end{document}