LaTeX Forum

% ----------------------------------------------------------------------
%                   LATEX TEMPLATE FOR PhD THESIS
% ----------------------------------------------------------------------

% based on Harish Bhanderi's PhD/MPhil template, then Uni Cambridge
% http://www-h.eng.cam.ac.uk/help/tpl/textprocessing/ThesisStyle/
% corrected and extended in 2007 by Jakob Suckale, then MPI-CBG PhD programme
% and made available through OpenWetWare.org - the free biology wiki


%: Style file for Latex
% Most style definitions are in the external file PhDthesisPSnPDF.
% In this template package, it can be found in ./Latex/Classes/
\documentclass[twoside,11pt]{Latex/Classes/PhDthesisPSnPDF}


%: Macro file for Latex
% Macros help you summarise frequently repeated Latex commands.
% Here, they are placed in an external file /Latex/Macros/MacroFile1.tex
% An macro that you may use frequently is the figuremacro (see introduction.tex)
\include{Latex/Macros/MacroFile1}



%: ----------------------------------------------------------------------
%:                  TITLE PAGE: name, degree,..
% ----------------------------------------------------------------------
% below is to generate the title page with crest and author name

%if output to PDF then put the following in PDF header
\ifpdf  
    \pdfinfo { /Title  (PhD and MPhil Thesis Classes)
               /Creator (TeX)
               /Producer (pdfTeX)
               /Author (YourName your@email.net)
               /CreationDate (D:YYYYMMDDhhmmss)  %format D:YYYYMMDDhhmmss
               /ModDate (D:YYYYMMDDhhmm)
               /Subject (xyz)
               /Keywords (add, your, keywords, here) }
    \pdfcatalog { /PageMode (/UseOutlines)
                  /OpenAction (fitbh)  }
\fi


\title{Title of your thesis}



% ----------------------------------------------------------------------
% The section below defines www links/email for author and institutions
% They will appear on the title page of the PDF and can be clicked
\ifpdf
  \author{\href{mailto:your@email.net}{YourName}}
%  \cityofbirth{born in XYZ} % uncomment this if your university requires this
%  % If city of birth is required, also uncomment 2 sections in PhDthesisPSnPDF
%  % Just search for the "city" and you'll find them.
  \collegeordept{\href{http://www.something.net}{CollegeOrDepartment}}
  \university{\href{http://www.something.net}{University}}

  % The crest is a graphics file of the logo of your research institution.
  % Place it in ./0_frontmatter/figures and specify the width
  \crest{\includegraphics[width=4cm]{logo}}
  
% If you are not creating a PDF then use the following. The default is PDF.
\else
  \author{YourName}
%  \cityofbirth{born in XYZ}
  \collegeordept{CollegeOrDept}
  \university{University}
  \crest{\includegraphics[width=4cm]{logo}}
\fi

%\renewcommand{\submittedtext}{change the default text here if needed}
\degree{Philosophi\ae Doctor (PhD), DPhil,..}
\degreedate{year month}


% ----------------------------------------------------------------------
       
% turn of those nasty overfull and underfull hboxes
\hbadness=10000
\hfuzz=50pt


%: --------------------------------------------------------------
%:                  FRONT MATTER: dedications, abstract,..
% --------------------------------------------------------------

\begin{document}

%\language{english}

% sets line spacing
\renewcommand\baselinestretch{1.2}
\baselineskip=18pt plus1pt


%: ----------------------- generate cover page ------------------------

\maketitle  % command to print the title page with above variables


%: ----------------------- cover page back side ------------------------
% Your research institution may require reviewer names, etc.
% This cover back side is required by Dresden Med Fac; uncomment if needed.

\newpage
\vspace{10mm}
1. Reviewer: Name

\vspace{10mm}
2. Reviewer: 

\vspace{20mm}
Day of the defense:

\vspace{20mm}
\hspace{70mm}Signature from head of PhD committee:



%: ----------------------- abstract ------------------------

% Your institution may have specific regulations if you need an abstract and where it is to be placed in the document. The default here is just after title.

\include{0_frontmatter/abstract}

% The original template provides and abstractseparate environment, if your institution requires them to be separate. I think it's easier to print the abstract from the complete thesis by restricting printing to the relevant page.
% \begin{abstractseparate}
%   \input{Abstract/abstract}
% \end{abstractseparate}


%: ----------------------- tie in front matter ------------------------

\frontmatter
\include{0_frontmatter/dedication}
\include{0_frontmatter/acknowledgement}


%: ----------------------- contents ------------------------

\setcounter{secnumdepth}{3} % organisational level that receives a numbers
\setcounter{tocdepth}{3}    % print table of contents for level 3
\tableofcontents            % print the table of contents
% levels are: 0 - chapter, 1 - section, 2 - subsection, 3 - subsection


%: ----------------------- list of figures/tables ------------------------

\listoffigures	% print list of figures

\listoftables  % print list of tables


%: ----------------------- glossary ------------------------

% Tie in external source file for definitions: /0_frontmatter/glossary.tex
% Glossary entries can also be defined in the main text. See glossary.tex
\include{0_frontmatter/glossary} 

\begin{multicols}{2} % \begin{multicols}{#columns}[header text][space]
\begin{footnotesize} % scriptsize(7) < footnotesize(8) < small (9) < normal (10)

\printnomenclature[1.5cm] % [] = distance between entry and description
\label{nom} % target name for links to glossary

\end{footnotesize}
\end{multicols}



%: --------------------------------------------------------------
%:                  MAIN DOCUMENT SECTION
% --------------------------------------------------------------

% the main text starts here with the introduction, 1st chapter,...
\mainmatter

\renewcommand{\chaptername}{} % uncomment to print only "1" not "Chapter 1"


%: ----------------------- subdocuments ------------------------

% Parts of the thesis are included below. Rename the files as required.
% But take care that the paths match. You can also change the order of appearance by moving the include commands.

\include{1_introduction/introduction}	% background information
\include{2/aims}						% aims of the project

\include{3/XYZ}			
\include{4/XYZ}	
\include{5/XYZ}
\include{6/XYZ}

\include{7/discussion}               % discussion of results

\include{8/materials_methods}        % description of lab methods




% --------------------------------------------------------------
%:                  BACK MATTER: appendices, refs,..
% --------------------------------------------------------------

% the back matter: appendix and references close the thesis


%: ----------------------- bibliography ------------------------

% The section below defines how references are listed and formatted
% The default below is 2 columns, small font, complete author names.
% Entries are also linked back to the page number in the text and to external URL if provided in the BibTex file.

% PhDbiblio-url2 = names small caps, title bold & hyperlinked, link to page 
\begin{multicols}{2} % \begin{multicols}{ # columns}[ header text][ space]
\begin{tiny} % tiny(5) < scriptsize(7) < footnotesize(8) < small (9)

\bibliographystyle{Latex/Classes/PhDbiblio-url2} % Title is link if provided
\renewcommand{\bibname}{References} % changes the header; default: Bibliography

\bibliography{9_backmatter/references} % adjust this to fit your BibTex file

\end{tiny}
\end{multicols}

% --------------------------------------------------------------
% Various bibliography styles exit. Replace above style as desired.

% in-text refs: (1) (1; 2)
% ref list: alphabetical; author(s) in small caps; initials last name; page(s)
%\bibliographystyle{Latex/Classes/PhDbiblio-case} % title forced lower case
%\bibliographystyle{Latex/Classes/PhDbiblio-bold} % title as in bibtex but bold
%\bibliographystyle{Latex/Classes/PhDbiblio-url} % bold + www link if provided

%\bibliographystyle{Latex/Classes/jmb} % calls style file jmb.bst
% in-text refs: author (year) without brackets
% ref list: alphabetical; author(s) in normal font; last name, initials; page(s)

%\bibliographystyle{plainnat} % calls style file plainnat.bst
% in-text refs: author (year) without brackets
% (this works with package natbib)


% --------------------------------------------------------------

% according to Dresden med fac summary has to be at the end
%\include{0_frontmatter/abstract}

%: Declaration of originality
\include{9_backmatter/declaration}



\end{document}

%---------------------------------------------------------------
% PhDthesis version 2 style file by Jakob Suckale, 2007
% based on CUEDthesis version 1 by Harish Bhanderi 2002
%---------------------------------------------------------------



%-------------------------- identification ---------------------
%\NeedsTeXFormat{LaTeX2e}
\ProvidesClass{Latex/Classes/PhDthesisPSnPDF}[2007/09/06 v2 PhD thesis class]


%:-------------------------- report or book -----------------------

%If you want to use a Report style document then uncomment the following 3 lines and comment the below 8 book style lines:
%\DeclareOption*{\PassOptionsToClass{\CurrentOption}{report}}
%\ProcessOptions\relax
%%\LoadClass[a4paper]{report}
%\ifx\pdfoutput\undefined
%   \LoadClass[dvips, a4paper]{report}
%\else
%   \LoadClass[pdftex, a4paper]{report}
%\fi

%%Bibliography
%%uncomment next line to change bibliography name to references for Report document class
%\renewcommand{\refname}{References}

%If you want to use a Book style document then uncomment the following 3 lines and comment the above 8 report style lines:
\DeclareOption*{\PassOptionsToClass{\CurrentOption}{book}}
\ProcessOptions\relax
\ifx\pdfoutput\undefined
   \LoadClass[dvips, a4paper]{book}
\else
   \LoadClass[pdftex, a4paper]{book}
\fi


%:-------------------------- packages for fancy things -----------------------

\usepackage{amssymb}
\usepackage{graphics} % for improved inclusion of graphics
%\usepackage{wrapfig} % to include figure with text wrapping around it
\usepackage[margin=10pt,font=small,labelfont=bf]{caption} % for improved layout of figure captions with extra margin, smaller font than text
\usepackage{fancyhdr} % for better header layout
\usepackage{eucal}
\usepackage[english]{babel}
\usepackage[usenames, dvipsnames]{color}
\usepackage[perpage]{footmisc}
\usepackage[round, sort, numbers]{natbib}
\usepackage{ifthen}
\usepackage{multicol} % for pages with multiple text columns, e.g. References
\setlength{\columnsep}{20pt} % space between columns; default 10pt quite narrow
\usepackage[nottoc]{tocbibind} % correct page numbers for bib in TOC, nottoc suppresses an entry for TOC itself
%\usepackage{nextpage}

%:-------------------------- Glossary/Abbrev./Symbols -----------------------

\usepackage[intoc]{nomencl} % load nomencl extension; include in TOC
%\nomrefpage % to include page numbers after abbrevations
\renewcommand{\nomname}{Glossary} % rename nomenclature
\renewcommand{\nomlabel}[1]{\textbf{#1}} % make abbreviations bold
\makenomenclature % used to be \makeglossary
\newcommand{\g}{\footnote{For all abbreviations see the glossary on page \pageref{nom}.}} % type "\g" to refer to glossary

% used to be for sorting into categories:
%\renewcommand\nomgroup[1]{%
%  \ifthenelse{\equal{#1}{A}}{%
%   \item[\textbf{Roman Symbols}] }{%             A - Roman
%    \ifthenelse{\equal{#1}{G}}{%
%     \item[\textbf{Greek Symbols}]}{%             G - Greek
%      \ifthenelse{\equal{#1}{R}}{%
%        \item[\textbf{Superscripts}]}{%              R - Superscripts
%          \ifthenelse{\equal{#1}{S}}{%
%           \item[\textbf{Subscripts}]}{{%             S - Subscripts
%	    \ifthenelse{\equal{#1}{X}}{%
%	     \item[\textbf{Other Symbols}]}{{%    X - Other Symbols
%	    \ifthenelse{\equal{#1}{Z}}{%
%	     \item[\textbf{Acronyms}]}%              Z - Acronyms
%              			{{}}}}}}}}}}


%:-------------------------- PDF/PS setup -----------------------

%if you use a macTeX 2008 or later, use the ifpdf package
\usepackage{ifpdf} 

%if you use an older version, uncomment these lines:
%\newif \ifpdf
%    \ifx \pdfoutput \undefined
        % for running latex
%        \pdffalse
%    \else
        % for running pdflatex
%        \pdfoutput = 1    % positive value for a PDF output
                          % otherwise a DVI
%        \pdftrue
%\fi

\ifpdf
%-->
%--> Google.com search "hyperref options"
%--> 
%--> http://www.ai.mit.edu/lab/sysadmin/latex/documentation/latex/hyperref/manual.pdf
%--> http://www.chemie.unibas.ch/~vogtp/LaTeX2PDFLaTeX.pdf 
%--> http://www.uni-giessen.de/partosch/eurotex99/ oberdiek/print/sli4a4col.pdf
%--> http://me.in-berlin.de/~miwie/tex-refs/html/latex-packages.html
%-->
    \usepackage[ pdftex, plainpages = false, pdfpagelabels, 
                 pdfpagelayout = useoutlines,
                 bookmarks,
                 bookmarksopen = true,
                 bookmarksnumbered = true,
                 breaklinks = true,
                 linktocpage,
                 pagebackref,
                 colorlinks = false,  % was true
                 linkcolor = blue,
                 urlcolor  = blue,
                 citecolor = red,
                 anchorcolor = green,
                 hyperindex = true,
                 hyperfigures
                 ]{hyperref} 

    \DeclareGraphicsExtensions{.png, .jpg, .jpeg, .pdf, .gif} %GIF doesn't work??
    \usepackage[pdftex]{graphicx}
    \pdfcompresslevel=9
    \graphicspath{{0_frontmatter/figures/PNG/}{0_frontmatter/figures/PDF/}{0_frontmatter/figures/}}
\else
    \usepackage[ dvips, 
                 bookmarks,
                 bookmarksopen = true,
                 bookmarksnumbered = true,
                 breaklinks = true,
                 linktocpage,
                 pagebackref,
                 colorlinks = true,
                 linkcolor = blue,
                 urlcolor  = blue,
                 citecolor = red,
                 anchorcolor = green,
                 hyperindex = true,
                 hyperfigures
                 ]{hyperref}

    \DeclareGraphicsExtensions{.eps, .ps}
    \usepackage{epsfig}
    \usepackage{graphicx}
    \graphicspath{{0_frontmatter/figures/EPS/}{0_frontmatter/figures/}}
\fi


%:-------------------------- page layout -----------------------

%A4 settings
\ifpdf
   \pdfpageheight=297mm
   \pdfpagewidth=210mm
\else
   \setlength{\paperheight}{297mm}
   \setlength{\paperwidth}{210mm}
\fi

\setlength{\hoffset}{0.00cm}
\setlength{\voffset}{0.00cm}

%: Uncomment this secion for two-sided printing
% ------------------------------
\setlength{\oddsidemargin}{1.5cm}
\setlength{\evensidemargin}{0cm}
\setlength{\topmargin}{1mm}
\setlength{\headheight}{1.36cm}
\setlength{\headsep}{1.00cm}
\setlength{\textheight}{20.84cm}
\setlength{\textwidth}{14.5cm}
\setlength{\marginparsep}{1mm}
\setlength{\marginparwidth}{3cm}
\setlength{\footskip}{2.36cm}


%: Uncomment this secion for one-sided printing
% taken from the original file, but with the first two lanes modified
% ------------------------------
%\setlength{\evensidemargin}{1.9cm} % was 1.96cm in original
%\setlength{\oddsidemargin}{-0.001cm} % was -0.54cm in original file
%\setlength{\topmargin}{1mm}
%\setlength{\headheight}{1.36cm}
%\setlength{\headsep}{1.00cm}
%\setlength{\textheight}{20.84cm}
%\setlength{\textwidth}{14.5cm}
%\setlength{\marginparsep}{1mm}
%\setlength{\marginparwidth}{3cm}
%\setlength{\footskip}{2.36cm}


%: section below defines fancy page layout options
% ------------------------------
\pagestyle{fancy}
\renewcommand{\chaptermark}[1]{\markboth{\MakeUppercase{\thechapter. #1 }}{}}
\renewcommand{\sectionmark}[1]{\markright{\thesection\ #1}}
\fancyhf{}
\fancyhead[RO]{\bfseries\rightmark}
\fancyhead[LE]{\bfseries\leftmark}
\fancyfoot[C]{\thepage}
\renewcommand{\headrulewidth}{0.5pt}
\renewcommand{\footrulewidth}{0pt}
\addtolength{\headheight}{0.5pt}
\fancypagestyle{plain}{
  \fancyhead{}
  \renewcommand{\headrulewidth}{0pt}
}





%:-------------------------- title page layout -----------------------

% starts roman page numbering until chapter 1
% important to avoid two pages numbered 1 and 2 which may cause bad links
% bug: cover i + back side ii and then numbering restarts with i; should be iii
\renewcommand{\thepage}{\roman{page}}

\newcommand{\submittedtext}{{A thesis submitted for the degree of}}

% DECLARATIONS
% These macros are used to declare arguments needed for the
% construction of the title page and other preamble.

% The year and term the degree will be officially conferred
\def\degreedate#1{\gdef\@degreedate{#1}}
% The full (unabbreviated) name of the degree
\def\degree#1{\gdef\@degree{#1}}
% The name of your college or department(eg. Trinity, Pembroke, Maths, Physics)
\def\collegeordept#1{\gdef\@collegeordept{#1}}
% The name of your University
\def\university#1{\gdef\@university{#1}}
% Defining the crest
\def\crest#1{\gdef\@crest{#1}}
% Stating the city of birth for title page where needed; uncommented for use
%\def\cityofbirth#1{\gdef\@cityofbirth{#1}}

% These macros define an environment for front matter that is always 
% single column even in a double-column document.

\newenvironment{alwayssingle}{%
       \@restonecolfalse\if@twocolumn\@restonecoltrue\onecolumn
       \else\newpage\fi}
       {\if@restonecol\twocolumn\else\newpage\fi}

%define title page layout
\renewcommand{\maketitle}{%
\begin{alwayssingle}
    \renewcommand{\footnotesize}{\small}
    \renewcommand{\footnoterule}{\relax}
    \thispagestyle{empty}
%  \null\vfill
  \begin{center}
    { \Huge {\bfseries {\@title}} \par}
{\large \vspace*{35mm} {{\@crest} \par} \vspace*{25mm}}
    {{\Large \@author} \par}
%	\vspace*{1ex}
%	{{\@cityofbirth} \par}    
{\large 
	\vspace*{1ex}
    {{\@collegeordept} \par}
	\vspace*{1ex}
    {{\@university} \par}
	\vspace*{25mm}
    {{\submittedtext} \par}
	\vspace*{1ex}
    {\it {\@degree} \par}
	\vspace*{2ex}
    {\@degreedate}
}%end large
  \end{center}
  \null\vfill
\end{alwayssingle}}

% page number for cover back side should have page number blanked


%:-------------------------- front matter layout -----------------------

% DEDICATION
%
% The dedication environment makes sure the dedication gets its
% own page and is set out in verse format.

\newenvironment{dedication}
{\begin{alwayssingle}
  \pagestyle{empty}
  \begin{center}
  \vspace*{1.5cm}
  {\LARGE }
  \end{center}
  \vspace{0.5cm}
  \begin{quote} \begin{center}}
{\end{center} \end{quote} \end{alwayssingle}}


% ACKNOWLEDGEMENTS
%
% The acknowledgements environment puts a large, bold, centered 
% "Acknowledgements" label at the top of the page. The acknowledgements
% themselves appear in a quote environment, i.e. tabbed in at both sides, and
% on its own page.

\newenvironment{acknowledgements}
{\pagestyle{empty}
\begin{alwayssingle}
\begin{center}
\vspace*{1.5cm}
{\Large \bfseries Acknowledgements}
\end{center}
\vspace{0.5cm}
\begin{quote}}
{\end{quote}\end{alwayssingle}}

% The acknowledgementslong environment puts a large, bold, centered 
% "Acknowledgements" label at the top of the page. The acknowledgement itself 
% does not appears in a quote environment so you can get more in.

\newenvironment{acknowledgementslong}
{\pagestyle{empty}
\begin{alwayssingle}
\begin{center}
\vspace*{1.5cm}
{\Large \bfseries Acknowledgements}
\end{center}
\vspace{0.5cm}\begin{quote}}
{\end{quote}\end{alwayssingle}}

%ABSTRACT
%
%The abstract environment puts a large, bold, centered "Abstract" label at
%the top of the page. The abstract itself appears in a quote environment,
%i.e. tabbed in at both sides, and on its own page.

\newenvironment{abstracts} {\begin{alwayssingle} \pagestyle{empty}
  \begin{center}
  \vspace*{1.5cm}
  {\Large \bfseries  Abstract}
  \end{center}
  \vspace{0.5cm}
   \begin{quote}}
{\end{quote}\end{alwayssingle}}

%The abstractlong environment puts a large, bold, centered "Abstract" label at
%the top of the page. The abstract itself does not appears in a quote
%environment so you can get more in.

\newenvironment{abstractslong} {\begin{alwayssingle} \pagestyle{empty}
  \begin{center}
  \vspace*{1.5cm}
  {\Large \bfseries  Abstract}
  \end{center}
  \vspace{0.5cm} \begin{quote}}
{\end{quote}\end{alwayssingle}}

%The abstractseparate environment is for running of a page with the abstract
%on including title and author etc as required to be handed in separately

\newenvironment{abstractseparate} {\begin{alwayssingle} \pagestyle{empty}
  \vspace*{-1in}
 \begin{center}
    { \Large {\bfseries {\@title}} \par}
    {{\large \vspace*{1ex} \@author} \par}
{\large \vspace*{1ex}
    {{\@collegeordept} \par}
    {{\@university} \par}
\vspace*{1ex}
    {{\it \submittedtext} \par}
    {\it {\@degree} \par}
\vspace*{2ex}
    {\@degreedate}}
  \end{center}}
{\end{alwayssingle}}

%Statement of originality if required

\newenvironment{declaration} {\begin{alwayssingle} \pagestyle{empty}
  \begin{center}
  \vspace*{1.5cm}
  {\Large \bfseries  Declaration}
  \end{center}
  \vspace{0.5cm}
   \begin{quote}}
{\end{quote}\end{alwayssingle}}


%:-------------------------- page numbers: roman+arabic -----------------------

% ROMANPAGES
%
% The romanpages environment set the page numbering to lowercase roman one
% for the contents and figures lists. It also resets
% page-numbering for the remainder of the dissertation (arabic, starting at 1).

%\newenvironment{romanpages}
%{
%	\setcounter{page}{1}
%	\renewcommand{\thepage}{\roman{page}}
%} % close romanpage env't
 
{\newpage\renewcommand{\thepage}{\arabic{page}}\setcounter{page}{1}}

% This file contains macros that can be called up from connected TeX files
% It helps to summarise repeated code, e.g. figure insertion (see below).

% insert a centered figure with caption and description
% parameters 1:filename, 2:title, 3:description and label
\newcommand{\figuremacro}[3]{
	\begin{figure}[htbp]
		\centering
		\includegraphics[width=1\textwidth]{#1}
		\caption[#2]{\textbf{#2} - #3}
		\label{#1}
	\end{figure}
}

% insert a centered figure with caption and description AND WIDTH
% parameters 1:filename, 2:title, 3:description and label, 4: textwidth
% textwidth 1 means as text, 0.5 means half the width of the text
\newcommand{\figuremacroW}[4]{
	\begin{figure}[htbp]
		\centering
		\includegraphics[width=#4\textwidth]{#1}
		\caption[#2]{\textbf{#2} - #3}
		\label{#1}
	\end{figure}
}

% inserts a figure with wrapped around text; only suitable for NARROW figs
% o is for outside on a double paged document; others: l, r, i(inside)
% text and figure will each be half of the document width
% note: long captions often crash with adjacent content; take care
% in general: above 2 macro produce more reliable layout
\newcommand{\figuremacroN}[3]{
	\begin{wrapfigure}{o}{0.5\textwidth}
		\centering
		\includegraphics[width=0.48\textwidth]{#1}
		\caption[#2]{{\small\textbf{#2} - #3}}
		\label{#1}
	\end{wrapfigure}
}

% predefined commands by Harish
\newcommand{\PdfPsText}[2]{
  \ifpdf
     #1
  \else
     #2
  \fi
}

\newcommand{\IncludeGraphicsH}[3]{
  \PdfPsText{\includegraphics[height=#2]{#1}}{\includegraphics[bb = #3, height=#2]{#1}}
}

\newcommand{\IncludeGraphicsW}[3]{
  \PdfPsText{\includegraphics[width=#2]{#1}}{\includegraphics[bb = #3, width=#2]{#1}}
}

\newcommand{\InsertFig}[3]{
  \begin{figure}[!htbp]
    \begin{center}
      \leavevmode
      #1
      \caption{#2}
      \label{#3}
    \end{center}
  \end{figure}
}


%%% Local Variables: 
%%% mode: latex
%%% TeX-master: "~/Documents/LaTeX/CUEDThesisPSnPDF/thesis"
%%% End: 

\documentclass[twoside,11pt]{Latex/Classes/PhDthesisPSnPDF}

\ProvidesClass{Latex/Classes/PhDthesisPSnPDF}[2007/09/06 v2 PhD thesis class]

\include{Latex/Macros/MacroFile1}

\ifpdf  
    \pdfinfo { /Title  (PhD and MPhil Thesis Classes)
               /Creator (TeX)
               /Producer (pdfTeX)
               /Author (YourName your@email.net)
               /CreationDate (D:YYYYMMDDhhmmss)  %format D:YYYYMMDDhhmmss
               /ModDate (D:YYYYMMDDhhmm)
               /Subject (xyz)
               /Keywords (add, your, keywords, here) }
    \pdfcatalog { /PageMode (/UseOutlines)
                  /OpenAction (fitbh)  }
\fi

\ifpdf
  \author{\href{mailto:your@email.net}{YourName}}
%  \cityofbirth{born in XYZ} % uncomment this if your university requires this
%  % If city of birth is required, also uncomment 2 sections in PhDthesisPSnPDF
%  % Just search for the "city" and you'll find them.
  \collegeordept{\href{http://www.something.net}{CollegeOrDepartment}}
  \university{\href{http://www.something.net}{University}}

  % The crest is a graphics file of the logo of your research institution.
  % Place it in ./0_frontmatter/figures and specify the width
  \crest{\includegraphics[width=4cm]{logo}}
 
% If you are not creating a PDF then use the following. The default is PDF.
\else
  \author{YourName}
%  \cityofbirth{born in XYZ}
  \collegeordept{CollegeOrDept}
  \university{University}
  \crest{\includegraphics[width=4cm]{logo}}
\fi

% turn of those nasty overfull and underfull hboxes
\hbadness=10000
\hfuzz=50pt

% sets line spacing
\renewcommand\baselinestretch{1.2}
\baselineskip=18pt plus1pt

\newpage
\vspace{10mm}

% levels are: 0 - chapter, 1 - section, 2 - subsection, 3 - subsection

\begin{multicols}{2} % \begin{multicols}{#columns}[header text][space]
\begin{footnotesize} % scriptsize(7) < footnotesize(Cool < small (9) < normal (10)

\printnomenclature[1.5cm] % [] = distance between entry and description
\label{nom} % target name for links to glossary

\end{footnotesize}
\end{multicols}

\renewcommand{\chaptername}{} % uncomment to print only "1" not "Chapter 

\begin{multicols}{2} % \begin{multicols}{ # columns}[ header text][ space]
\begin{tiny} % tiny(5) < scriptsize(7) < footnotesize(Cool < small (9)

\bibliographystyle{Latex/Classes/PhDbiblio-url2} % Title is link if provided
\renewcommand{\bibname}{References} % changes the header; default: Bibliography

\bibliography{9_backmatter/references} % adjust this to fit your BibTex file

\end{tiny}
\end{multicols}

\ifx\pdfoutput\undefined
   \LoadClass[dvips, a4paper]{book}
\else
   \LoadClass[pdftex, a4paper]{book}
\fi

\usepackage[english]{babel}

\usepackage[nottoc]{tocbibind} % correct page numbers for bib in TOC, nottoc suppresses an entry for TOC itself

\ifpdf
%-->
%--> Google.com search "hyperref options"
%-->
%--> http://www.ai.mit.edu/lab/sysadmin/.....latex/hyperref/manual.pdf
%--> http://www.chemie.unibas.ch/~vogtp/LaTeX2PDFLaTeX.pdf
%--> http://www.uni-giessen.de/partosch/eurotex99/ oberdiek/print/sli4a4col.pdf
%--> http://me.in-berlin.de/~miwie/tex-refs/html/latex-packages.html
%-->
    \usepackage[ pdftex, plainpages = false, pdfpagelabels,
...

    \DeclareGraphicsExtensions{.png, .jpg, .jpeg, .pdf, .gif} %GIF doesn't work??

    \graphicspath{{0_frontmatter/figures/PNG/}{0_frontmatter/figures/PDF/}{0_frontmatter/figures/}}

:-------------------------- page layout -----------------------

%A4 settings
\ifpdf
   \pdfpageheight=297mm
   \pdfpagewidth=210mm
\else
   \setlength{\paperheight}{297mm}
   \setlength{\paperwidth}{210mm}
\fi

\setlength{\hoffset}{0.00cm}
\setlength{\voffset}{0.00cm}

%: Uncomment this secion for two-sided printing
% ------------------------------
\setlength{\oddsidemargin}{1.5cm}
\setlength{\evensidemargin}{0cm}
\setlength{\topmargin}{1mm}
\setlength{\headheight}{1.36cm}
\setlength{\headsep}{1.00cm}
\setlength{\textheight}{20.84cm}
\setlength{\textwidth}{14.5cm}
\setlength{\marginparsep}{1mm}
\setlength{\marginparwidth}{3cm}
\setlength{\footskip}{2.36cm}


%: Uncomment this secion for one-sided printing
% taken from the original file, but with the first two lanes modified
% ------------------------------
%\setlength{\evensidemargin}{1.9cm} % was 1.96cm in original
%\setlength{\oddsidemargin}{-0.001cm} % was -0.54cm in original file
%\setlength{\topmargin}{1mm}
%\setlength{\headheight}{1.36cm}
%\setlength{\headsep}{1.00cm}
%\setlength{\textheight}{20.84cm}
%\setlength{\textwidth}{14.5cm}
%\setlength{\marginparsep}{1mm}
%\setlength{\marginparwidth}{3cm}
%\setlength{\footskip}{2.36cm}

\renewcommand{\thepage}{\roman{page}}

{ \Huge {\bfseries {\@title}} \par}

  \null\vfill 

\newcommand{\InsertFig}[3]{
  \begin{figure}[!htbp]
    \begin{center}
      \leavevmode
      #1
      \caption{#2}
      \label{#3}
    \end{center}
  \end{figure}
}

\documentclass[%
	 % Zeilenabstand
	liststotocnumbered,%	Listen nummeriert einf?gen
	pdftex,%              		PDFTex verwenden
	a4paper,%             		A4 Papier
	oneside,%             		Einseitig
	BCOR1cm,%			Randzugabe bei Duplex
	bibtotocnumbered,%    	Literaturverzeichnis nummeriert einf?gen
	headsepline,%         		Linie nach Kopfzeile
	footsepline,%         		Linie vor Fusszeile
	12pt,%               			 Schriftgr??e, besser lesbar am Bildschirm	
	%smallheadings
	ngerman,
	%draft	
]
%{thesis}
{scrartcl}

%% Kapitelnummerierung mit vier Ebenen erm?glichen 
\setcounter{secnumdepth}{4}
%% Erstzeileneinzug bei neuem Absatz verhindern, egal bei Layout mit scrpage2
\setlength{\parindent}{0mm} 
%% Abstand zwischen Abs?tzen einstellen 
\setlength{\parskip}{8pt}
\setcapindent{1em} % Zeilenumbruch bei Bildbeschreibungen.
\setcounter{secnumdepth}{3} %  Parameterm, wie weit ?berschriften durchnummeriert werden
\setcounter{tocdepth}{3} % Eintrag ins Inhaltsverzeichnis bis Ebene X

\clubpenalty = 10000 % schliesst Schusterjungen aus
\widowpenalty = 10000 % schliesst Hurenkinder aus

%%%%%% Pakete %%%%%%


\usepackage[final]{pdfpages} %PDF Dateien einf?gen erm?glichen
\usepackage{color} % Farben erm?glichen
\usepackage{scrpage2} % Seitenlayout KOMA-Script
\usepackage[ngerman]{babel} % erm?glicht deutsche Silbentrennung und direkte Eingabe von Umlauten
  \addto\captionsngerman{%
    \renewcommand{\figurename}{Bild}%    %Ermöglichen, dass Caption von figure und table umbenannt werden kann
    \renewcommand{\tablename}{Tabelle}%
    \renewcommand{\listfigurename}{Bildverzeichnis}}
\usepackage[latin1]{inputenc} % teilt LaTeX die Texcodierung mit. Bei Windowssystemen: ansinew
\usepackage[T1]{fontenc} % erm?glicht die Silbentrennung von W?rtern mit Umlauten
\usepackage{hyperref} % PDF wird mit Lesezeichen (verlinktes Inhaltsverzeichnis) versehen (bei Betrachtung mit Acrobat Reader sichtbar)
\usepackage{array} % erweitern Tabelleneigenschaften
\usepackage{longtable} %Tabellen ?ber mehrere Seiten
\usepackage{graphicx} % Grafiken einbinden
\usepackage{amsmath, amstext, amsfonts, mathrsfs, amssymb, amsthm}
\usepackage[left=2.5cm,right=2.5cm,top=1.5cm,bottom=1.5cm,includeheadfoot]{geometry} %Seitenr?nder
\usepackage{setspace} %Zeilenabstand
\usepackage{url} %Darstellung von Weblinks mit dem \url{http://www.seite.de} Parameter
\usepackage{subfig} %Erm?glicht Darstellung mehrerer Bilder nebeneinander


%%%%%% Eigene Deklarationen %%%%%%
...

\usepackage{upgreek}

\usepackage{hyperref} 
%% PDF Dokuinfo 
  \hypersetup{ 
   ...
  }

  
%% Vorgaben %%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
\graphicspath{{Bilder/}}  %%Standardpfad f?r Bilder/Grafiken festlegen
\DeclareGraphicsExtensions{.pdf,.jpg,.png}
\bibliographystyle{alphadin}
 \renewcommand{\figurename}{Bild}
  \renewcommand{\refname}{Literatur} 
 \renewcommand{\thefigure}{\arabic{section}.\arabic{figure}}
  \renewcommand{\thetable}{\arabic{section}.\arabic{table}}
  \renewcommand{\listfigurename}{Bildverzeichnis} 
\makeatletter \@addtoreset{figure}{section}

 \makeatother