\documentclass[
  utf8,%     More capable input encoding than latin-1.
  % parskip,%  For vertical whitespace between paragraphs.  This comes down to more than just using parskip.sty, so it's better to use this class option.
  % S5MP % If you intend to really use margin paragraphs (not recommended!).
%  crop,%     Produce output with crop marks and paper size A4.  Liu-Tryck should like this.  Automatically adds information, including the physical page number, at the top of each page.
       %     Add option 'noInfo' to suppress the info at the top of each page when using option 'crop'.
  % Font options: 'kp' (default), 'times', 'lm'.  The KpFonts (loaded using 'kp'), is the most complete font among the provided options.  Among other, it supports slanted small caps.  See rtthesis.cls for more details regarding the font options.
  largesmallcaps,intlimits,widermath,% Good options to KpFonts.
  sharecounter,nobreak,definition=marks,%  See comments in the results chapter of this document for more information on these options!
  numbers, % If you want to cite references by numbers, use this option.
  noparts, % Use option 'noparts' if you do not make use of part divisions.
  table % Make xcolor work?
]{rtthesis}

\usepackage{mythesis}

\usepackage{tabularx}
\usepackage{float}

\begin{document}
\selectlanguage{english}

\frontmatter
\maketitle

% \begin{abstract}[swedish]
%   \input{abstract-swe}
% \end{abstract}

\begin{abstract}[english]
  \input{abstract}
\end{abstract}

\include{acknowledgments}

\tableofcontents

\newpage
\listoffigures
\newpage
\listoftables

\include{notation}

\mainmatter
\include{introduction}
\include{theory}
\include{methods}
\include{results}
\include{discussion}
\include{conclusion}

%\bibliography{IEEEfull,myrefs}
\bibliography{myrefs}

\part*{Appendix}
\appendix
\include{detaljer}
\clearemptydoublepage
\backmatter

\printindex

\end{document}