\documentstyle[12pt,doublespace,syrthesis]{report}
%\documentstyle[12pt,doublespace,syrthesis]{report}
\include{epsf}
\include{psfig}

%\includeonly{frontmatter, introduction, chapter1, bib}
%\setstretch{2}

\begin{document}
%this is the front page flyleaf
%\newpage
%\mbox{}

% put all your personal latex definitions in file defns.tex and include:
%\input{defns}
\copyrighttrue
\figurespagetrue
\tablespagetrue
\jokesfalse 
\linesourcefalse
\typeofthesis{Thesis}

% This is the frontmatter.tex file
\include{frontmatter}

\thesisbody

% Easiest way is to include/input files; one chapter per file

% Main body
\include{chapter1-introduction/chapter1}
\include{chapter2-general-model/chapter2}
\include{chapter3-multiparadigm/chapter3}
\include{chapter4-visualization/chapter4}
\include{chapter5-database/chapter5}
\include{chapter6-javaflow/chapter6}
\include{chapter7-conclusion/chapter7}

% Appendices
\appendix
\include{appendix/append1}
\include{appendix/append2}
\include{appendix/append3}
\include{appendix/append4}

% Bibliography
\include{bib/bib}
% Biography: this is the bio.tex file
\include{bio/bio}
%this is the back page flyleaf
%\newpage
%\mbox{}
\end{document}

