Thesis.tex

\documentclass[a4paper, 12pt, twoside]{report}

% need these two packages to use biber correctly
%\usepackage{biblatex}[style=ieee]
\usepackage[style=authoryear, % cite with authoryear
            citestyle=authoryear,
%           sorting=none,     % refs appear in the order they are cited
            backend=bibtex,   % use bibtex backend
            dashed=false,     % so same author doesnt show up 2nd time as '----'
            natbib=true,      % allow citep and citet
            uniquename=false, % turn off differentiating between authors of same
                              % name in in-line citations, 
                              % i.e. no "Q. Wang" and "Z. Wang", only "Wang".
            giveninits,       % always use intials for name in bibliography
            uniquelist=false, % needed to make maxnames work... :(
            maxcitenames=3,   % 3 names (when citing) before going to 'et al'
            mincitenames=1,   % Name et al when citing names > above.
            maxbibnames=10,   % limit to 10 names in bibliography
            minbibnames=10,   % before limiting to 10 + et.al.
            backref=true,
            backrefstyle=three,
            ]{biblatex}
\DeclareNameAlias{sortname}{given-family} % change to firstname-lastname
\usepackage[UKenglish]{babel} % British English hyphenation rules
\usepackage{csquotes}
\addbibresource{refs.bib}

% reduce font size in captions (default = \normalsize)
\usepackage{caption}
\captionsetup{font=small}

% fancy headers
\usepackage{fancyhdr}

% colours for things
\usepackage[usenames, dvipsnames, svgnames, table]{xcolor}

% tables
\usepackage{array}
\usepackage{adjustbox}
\usepackage{tabularx}

% change things in itemize
\usepackage{enumitem}

% algorithms stuff
\usepackage{braket}
\usepackage{algorithm} % float wrapper for algorithms
\usepackage{algpseudocode} % also loads algorithmicx
% change Require: to Input:
\renewcommand{\algorithmicrequire}{\textbf{Input:}} 
% change Ensure: to Output:
\renewcommand{\algorithmicensure}{\textbf{Output:}} 
% Remove arrow from comment and make itallic
\algrenewcommand\algorithmiccomment[1]{\hfill\textit{ #1 }} 

% figures
\usepackage{subcaption}
\usepackage{multirow, makecell}
\usepackage[cmex10]{amsmath}
\usepackage{amssymb}
\usepackage{amsfonts}
\interdisplaylinepenalty=2500

% acknowledgement quote
\usepackage{epigraph}
\renewcommand{\epigraphsize}{\large\itshape}
\setlength\epigraphwidth{10cm}
\setlength\epigraphrule{0pt}

\newcommand{\first}[1]{\textcolor{red}{#1}}
\newcommand{\second}[1]{\textcolor{blue}{#1}}
\newcommand{\third}[1]{\textcolor{ForestGreen}{#1}}

%%%%%%% UNIVERSITY GUIDELINES
% PAPER: International A4 (210mm x 297mm) or US Letter size
% (216mm x 279mm) within range 70 g/m2 to 100 g/m2. No
% restrictions are placed on the size of the drawings, maps or
% similar material, which should, however, be bound in with
% the thesis/dissertation or placed in a wallet affixed to the
% inside of the back cover.
%% taken care of in documentclass

% TYPING: Double or one-and-a-half spacing should be used in
% typescript except for indented quotations or footnotes, for
% which single spacing may be used.
\usepackage[doublespacing]{setspace}

% MARGINS: 30mm on the left and right-hand sides, 
% 20mm on the top and bottom margins.
\usepackage[a4paper, 
            left=30mm, right=30mm,
			top=20mm, bottom=20mm]{geometry}
%\usepackage[]{showframe} % uncomment to show frames around pages
%%%%%%% 

% allows more space at the bottom of the page to stop all the warnings from 
% latex as well as the large gaps that can appear between paragraphs.
\makeatletter
 \def\@textbottom{\vskip \z@ \@plus 24pt}
 \let\@texttop\relax
\makeatother

%% Set paragraph indentation.
\setlength{\parindent}{30pt}

%% set gap between footer and main text
\setlength{\footskip}{40pt}

\usepackage{breakcites}
\usepackage{microtype}

% title and date of thesis
\newcommand{\thesisTitle}{THESIS TITLE HERE}
\newcommand{\thesisDate}{MONTH, YEAR}
\newcommand{\thesisMyName}{YOUR NAME HERE}
\newcommand{\thesisSubjectName}{YOUR SUBJECT HERE} % e.g. Computer Science
\newcommand{\thesisDepartmentName}{YOUR DEPARTMENT HERE} % e.g. Department of Computer Science

% Copyright declaration.
\newcommand{\statement}{
\vspace{5mm}
\begin{flushleft}
\small\onehalfspacing\normalsize
Submitted by \thesisMyName, to the University of Exeter as a thesis for the
degree of Doctor of Philosophy in \thesisSubjectName, \thesisDate . 
\linebreak

This thesis is available for Library use on the understanding that it is
copyright material and that no quotation from the thesis may be published
without proper acknowledgement.
\linebreak

I certify that all material in this thesis which is not my own work has been
identified and that any material that has previously been submitted and
approved for the award of a degree by this or any other University has been
acknowledged.

%\vspace{50mm}
\vfill
Signed: \makebox[3in]{\dotfill}\\[-3pt]
\end{flushleft}
}

% Set the titlepage properties.   
\author{}

\title{\vspace{-30mm}
\large{University of Exeter \\[-3mm]
	      \thesisDepartmentName}\\[20mm]
    \begin{spacing}{1.0}
	\huge{\textbf{\thesisTitle}}\\[10mm]
	\end{spacing}
    \Large{\thesisMyName}
}
\date{\statement}

%%%% CHANGE '1 Chapter \n Chapter name' to:
%           '1 Chapter name'
\makeatletter
\def\@makechapterhead#1{%
  \vspace*{40\p@}%
  {\parindent \z@ \raggedright \normalfont
    \interlinepenalty\@M
    \Huge \bfseries
    \ifnum \c@secnumdepth >\m@ne
      \thechapter.\nobreakspace
    \fi
    #1\par\nobreak
    \vskip 40\p@
  }}
\makeatother
%%%% 

% *** NEW COMMANDS ***
% for \ie \eg
\usepackage{xspace}
\newcommand*{\eg}{e.g.\@\xspace}
\newcommand*{\ie}{i.e.\@\xspace}

% better empty set symbol
\let\oldemptyset\emptyset
\let\emptyset\varnothing
%%%%

% clicky links
\usepackage[pdftex, hyperfootnotes=false]{hyperref}
\usepackage{footnotebackref}

\hypersetup{
 hidelinks, % takes no value, hides all link colour
% colorlinks=true,
% citecolor=RoyalBlue,
% linkcolor=RoyalBlue,
% urlcolor=RoyalBlue,
 pdftitle = {\thesisTitle},        % FILL THIS IN LATER!
 pdfauthor = {{\thesisMyName}}
}

%%% Back refernces in bibliography: 
% make sure it says 'on pages xx, xx, and xx' (we added the 'and')
\DeclareListFormat{pageref}{%
    \ifthenelse{\value{listcount}=1}%
        {\hyperpage{#1}}%
        {\ifthenelse{\value{listcount}<\value{liststop}}%
            {\addcomma\addspace\hyperpage{#1}}%
            {\ifnumequal{\value{listcount}}{\value{liststop}}%
                {\addspace{}and\addspace\hyperpage{#1}}{}%
            }%
        }%
}%

% better capitalisation.
\DefineBibliographyStrings{english}{%
  backrefpage = {Cited on page},% originally "cited on page"
  backrefpages = {Cited on pages},% originally "cited on pages"
}

%%%%%%%%% Make it so the entire citation (author names and year) are coloured
\DeclareFieldFormat{citehyperref}{%
  \DeclareFieldAlias{bibhyperref}{noformat}% Avoid nested links
  \bibhyperref{#1}}

\DeclareFieldFormat{textcitehyperref}{%
  \DeclareFieldAlias{bibhyperref}{noformat}% Avoid nested links
  \bibhyperref{%
    #1%
    \ifbool{cbx:parens}
      {\bibcloseparen\global\boolfalse{cbx:parens}}
      {}}}

\savebibmacro{cite}
\savebibmacro{textcite}

\renewbibmacro*{cite}{%
  \printtext[citehyperref]{%
    \restorebibmacro{cite}%
    \usebibmacro{cite}}}

\renewbibmacro*{textcite}{%
  \ifboolexpr{
    ( not test {\iffieldundef{prenote}} and
      test {\ifnumequal{\value{citecount}}{1}} )
    or
    ( not test {\iffieldundef{postnote}} and
      test {\ifnumequal{\value{citecount}}{\value{citetotal}}} )
  }
    {\DeclareFieldAlias{textcitehyperref}{noformat}}
    {}%
  \printtext[textcitehyperref]{%
    \restorebibmacro{textcite}%
    \usebibmacro{textcite}}}
    
%%%%%%%

\begin{document}
%% TITLE PAGE
\maketitle

\pagenumbering{roman} % start with roman numbering

% ABSTRACT
\phantomsection
\addcontentsline{toc}{chapter}{Abstract}
\include{ch0/abstract}

%% Acknowledgements.
\phantomsection
\addcontentsline{toc}{chapter}{Acknowledgements}
\include{ch0/acknowledgements}

%% TABLES OF CONTENTS / FIGURES / TABLES
\tableofcontents

\listoffigures

\listoftables

%% INTRODUCTION
\newpage
\pagenumbering{arabic} % switch to real page numbers now we're into the content
\include{ch1/introduction}

%% LITERATURE REVIEW
\include{ch2/literaturereview}

%% MAIN CONTENT CHAPTERS
\include{ch3/ch3}

%% 
\include{ch4/ch4}

%% 
\include{ch5/ch5}

%% 
\include{ch6/ch6}

% SUMMARY AND CONCLUSION
\include{ch7/summaryconclusion}

%% BIBLIOGRAPHY
% \setlength{\bibhang}{0pt}  <-- do this if we wanna remove bib indent
\emergencystretch=1em
\printbibliography

\end{document}