header.tex

% comment out if working in vscode
% \RequirePackage[l2tabu]{nag}		% Warns for incorrect (obsolete) LaTeX usage
% \documentclass[a4paper,11pt,leqno,oldfontcommands]{memoir} %add 'draft' to turn draft option on (see below)

%
%
% Adding metadata:
\usepackage{datetime}
\usepackage{ifpdf}
\ifpdf
\pdfinfo{
   /Author (Author's name)
   /Title (PhD Thesis)
   /Keywords (One; Two;Three)
   /CreationDate (D:\pdfdate)
}
\fi
% When draft option is on.
\ifdraftdoc
	\usepackage{draftwatermark}				%Sets watermarks up.
	\SetWatermarkScale{0.3}
	\SetWatermarkText{\bf Draft: \today}
\fi
%
% Declare figure/table as a subfloat.
\newsubfloat{figure}
\newsubfloat{table}
% Better page layout for A4 paper, see memoir manual.
\settrimmedsize{297mm}{210mm}{*}
\setlength{\trimtop}{0pt}
\setlength{\trimedge}{\stockwidth}
\addtolength{\trimedge}{-\paperwidth}
\settypeblocksize{634pt}{448.13pt}{*}
\setulmargins{4cm}{*}{*}
\setlrmargins{*}{*}{1.5}
\setmarginnotes{17pt}{51pt}{\onelineskip}
\setheadfoot{\onelineskip}{2\onelineskip}
\setheaderspaces{*}{2\onelineskip}{*}
\checkandfixthelayout
%
\frenchspacing
% Font with math support: New Century Schoolbook
\usepackage{fouriernc}
\usepackage[T1]{fontenc}
%
% UoB guidelines:
%
% Text should be in double or 1.5 line spacing, and font size should be
% chosen to ensure clarity and legibility for the main text and for any
% quotations and footnotes. Margins should allow for eventual hard binding.
%
% Note: This is automatically set by memoir class. Nevertheless \OnehalfSpacing
% enables double spacing but leaves single spaced for captions for instance.
\OnehalfSpacing
%
% Sets numbering division level
\setsecnumdepth{subsection}
\maxsecnumdepth{subsubsection}
%
% Chapter style (taken and slightly modified from Lars Madsen Memoir Chapter
% Styles document
\usepackage{calc,soul,fourier}
\makeatletter
\newlength\dlf@normtxtw
\setlength\dlf@normtxtw{\textwidth}
\newsavebox{\feline@chapter}
\newcommand\feline@chapter@marker[1][4cm]{%
	\sbox\feline@chapter{%
		\resizebox{!}{#1}{\fboxsep=1pt%
			\colorbox{gray}{\color{white}\thechapter}%
		}}%
		\rotatebox{90}{%
			\resizebox{%
				\heightof{\usebox{\feline@chapter}}+\depthof{\usebox{\feline@chapter}}}%
			{!}{\scshape\so\@chapapp}}\quad%
		\raisebox{\depthof{\usebox{\feline@chapter}}}{\usebox{\feline@chapter}}%
}
\newcommand\feline@chm[1][4cm]{%
	\sbox\feline@chapter{\feline@chapter@marker[#1]}%
	\makebox[0pt][c]{% aka \rlap
		\makebox[1cm][r]{\usebox\feline@chapter}%
	}}
\makechapterstyle{daleifmodif}{
	\renewcommand\chapnamefont{\normalfont\Large\scshape\raggedleft\so}
	\renewcommand\chaptitlefont{\normalfont\Large\bfseries\scshape}
	\renewcommand\chapternamenum{} \renewcommand\printchaptername{}
	\renewcommand\printchapternum{\null\hfill\feline@chm[2.5cm]\par}
	\renewcommand\afterchapternum{\par\vskip\midchapskip}
	\renewcommand\printchaptertitle[1]{\color{gray}\chaptitlefont\raggedleft ##1\par}
}
\makeatother
\chapterstyle{daleifmodif}
%
% UoB guidelines:
%
% The pages should be numbered consecutively at the bottom centre of the
% page.
\makepagestyle{myvf}
\makeoddfoot{myvf}{}{\thepage}{}
\makeevenfoot{myvf}{}{\thepage}{}
\makeheadrule{myvf}{\textwidth}{\normalrulethickness}
\makeevenhead{myvf}{\footnotesize\textsc{\leftmark}}{}{}
\makeoddhead{myvf}{}{}{\footnotesize\textsc{\rightmark}}
\pagestyle{myvf}
%
% Oscar's command (it works):
% Fills blank pages until next odd-numbered page. Used to emulate single-sided
% frontmatter. This will work for title, abstract and declaration. Though the
% contents sections will each start on an odd-numbered page they will
% spill over onto the even-numbered pages if extending beyond one page
% (hopefully, this is ok).
\newcommand{\clearemptydoublepage}{\newpage{\thispagestyle{empty}\cleardoublepage}}
%
% Creates indexes for Table of Contents, List of Figures, List of Tables and Index
\makeindex
% \printglossaries below creates a list of abbreviations. \gls and related
% commands are then used throughout the text, so that latex can automatically
% keep track of which abbreviations have already been defined in the text.
%
% The import command enables each chapter tex file to use relative paths when
% accessing supplementary files. For example, to include
% chapters/brewing/images/figure1.png from chapters/brewing/brewing.tex we can
% use
% \includegraphics{images/figure1}
% instead of
% \includegraphics{chapters/brewing/images/figure1}
\usepackage{import}

% Add other packages needed for chapters here. For example:
\usepackage{lipsum}					%Needed to create dummy text
\usepackage{amsfonts} 					%Calls Amer. Math. Soc. (AMS) fonts
%\usepackage{stmaryrd}					%New AMS symbols
\usepackage{amsthm}					%Calls AMS theorem environment
\usepackage{amssymb}					%Calls AMS symbols
\usepackage{bm}
\usepackage[centertags]{amsmath}			%Writes maths centred down
\usepackage{bbm}
%\usepackage{mathpazo}
%\usepackage{newlfont}					%Helpful package for fonts and symbols
\usepackage{layouts}					%Layout diagrams
\usepackage{graphicx}					%Calls figure environment
\usepackage{longtable,rotating}			%Long tab environments including rotation. 
\usepackage[utf8]{inputenc}			%Needed to encode non-english characters 
									%directly for mac
\usepackage{colortbl}					%Makes coloured tables
%\usepackage{wasysym}					%More math symbols
%\usepackage{mathrsfs}					%Even more math symbols
\usepackage{float}						%Helps to place figures, tables, etc. 
\usepackage{verbatim}					%Permits pre-formated text insertion
\usepackage{upgreek}					%Calls other kind of greek alphabet
%\usepackage{latexsym}					%Extra symbols
\usepackage[round,authoryear,sort]{natbib}		%Calls bibliography commands
%\usepackage{apacite}
\usepackage[hyphens]{url}						%Supports url commands
% \usepackage{etex}						%eTeXÕs extended support for counters
% \usepackage{fixltx2e}					%Eliminates some in felicities of the 
									%original LaTeX kernel
\usepackage[british]{babel}		%For languages characters and hyphenation
\usepackage{color}                    				%Creates coloured text and background
\usepackage[usenames,dvipsnames]{xcolor}
\usepackage[colorlinks=true,linkcolor=Black,citecolor=MidnightBlue,urlcolor=Cerulean,breaklinks]{hyperref}              %Creates hyperlinks in cross references
\usepackage{memhfixc}					%Must be used on memoir document 
									%class after hyperref
\usepackage{enumerate}					%For enumeration counter
\usepackage{footnote}					%For footnotes
\usepackage{microtype}					%Makes pdf look better.

\usepackage{rotfloat}					%For rotating and float environments as tables, 
									%figures, etc. 
\usepackage{alltt}						%LaTeX commands are not disabled in 
									%verbatim-like environment
\usepackage[version=0.96]{pgf}			%PGF/TikZ is a tandem of languages for producing vector graphics from a 
\usepackage{tikz}						%geometric/algebraic description.
\usetikzlibrary{arrows,shapes,snakes,
		       automata,backgrounds,
		       petri,topaths}				%To use diverse features from tikz		
%
\usepackage{todonotes}
\usepackage{mathtools}
\usepackage{algorithm}%
\usepackage{algorithmicx}%
\usepackage[noend]{algpseudocode}%
\usepackage{authblk}
\usepackage{booktabs}
\usepackage{wrapfig}
\usepackage{multirow}
%\usepackage[style=long3col-booktabs,hyperfirst,nogroupskip,nopostdot,automake,toc]{glossaries} %Load glossaries package
\usepackage[style=long3col-booktabs,stylemods=longbooktabs,hyperfirst,nogroupskip,nopostdot,automake,toc,acronym,indexonlyfirst,automake]{glossaries-extra}
%\makeglossaries
%\usepackage{floatrow}
%Reduce widows  (the last line of a paragraph at the start of a page) and orphans
% (the first line of paragraph at the end of a page)
\widowpenalty=1000
\clubpenalty=1000
%
% New command definitions for my thesis
%
\newcommand{\keywords}[1]{\par\noindent{\small{\bf Keywords:} #1}} %Defines keywords small section
\newcommand{\parcial}[2]{\frac{\partial#1}{\partial#2}}                             %Defines a partial operator
\newcommand{\vectorr}[1]{\mathbf{#1}}                                                        %Defines a bold vector
\newcommand{\vecol}[2]{\left(                                                                         %Defines a column vector
	\begin{array}{c} 
		\displaystyle#1 \\
		\displaystyle#2
	\end{array}\right)}
\newcommand{\mados}[4]{\left(                                                                       %Defines a 2x2 matrix
	\begin{array}{cc}
		\displaystyle#1 &\displaystyle #2 \\
		\displaystyle#3 & \displaystyle#4
	\end{array}\right)}
\newcommand{\pgftextcircled}[1]{                                                                    %Defines encircled text
    \setbox0=\hbox{#1}%
    \dimen0\wd0%
    \divide\dimen0 by 2%
    \begin{tikzpicture}[baseline=(a.base)]%
        \useasboundingbox (-\the\dimen0,0pt) rectangle (\the\dimen0,1pt);
        \node[circle,draw,outer sep=0pt,inner sep=0.1ex] (a) {#1};
    \end{tikzpicture}
}

\newcommand{\range}[1]{\textnormal{range }#1}                                             %Defines range operator
\newcommand{\innerp}[2]{\left\langle#1,#2\right\rangle}                                 %Defines inner product
\newcommand{\prom}[1]{\left\langle#1\right\rangle}                                         %Defines average operator
\newcommand{\tra}[1]{\textnormal{tra} \: #1}                                                       %Defines trace operator
\newcommand{\sign}[1]{\textnormal{sign\,}#1}                                                   %Defines sign operator
\newcommand{\sech}[1]{\textnormal{sech} #1}                                                  %Defines sech
\newcommand{\diag}[1]{\textnormal{diag} #1}                                                    %Defines diag operator
\newcommand{\arcsech}[1]{\textnormal{arcsech} #1}                                       %Defines arcsech
\newcommand{\arctanh}[1]{\textnormal{arctanh} #1}                                         %Defines arctanh
%Change tombstone symbol
\newcommand{\blackged}{\hfill$\blacksquare$}
\newcommand{\whiteged}{\hfill$\square$}
\newcounter{proofcount}

\renewenvironment{proof}[1][\proofname.]{\par
 \ifnum \theproofcount>0 \pushQED{\whiteged} \else \pushQED{\blackged} \fi%
 \refstepcounter{proofcount}
 \normalfont 
 \trivlist
 \item[\hskip\labelsep
       \itshape
   {\bf\em #1}]\ignorespaces
}{%
 \addtocounter{proofcount}{-1}
 \popQED\endtrivlist
}
%
%
% New definition of square root:
% it renames \sqrt as \oldsqrt
\let\oldsqrt\sqrt
% it defines the new \sqrt in terms of the old one
\def\sqrt{\mathpalette\DHLhksqrt}
\def\DHLhksqrt#1#2{%
\setbox0=\hbox{$#1\oldsqrt{#2\,}$}\dimen0=\ht0
\advance\dimen0-0.2\ht0
\setbox2=\hbox{\vrule height\ht0 depth -\dimen0}%
{\box0\lower0.4pt\box2}}
%
% My caption style
\makeatletter
\newcommand{\mycaption}[2][\@empty]{
	\captionnamefont{\scshape} 
	\changecaptionwidth
	\captionwidth{0.9\linewidth}
	\captiondelim{.\:} 
	\indentcaption{0.75cm}
	\captionstyle[\centering]{}
	\setlength{\belowcaptionskip}{10pt}
	\ifx \@empty#1 \caption{#2}\else \caption[#1]{#2}
}
\makeatother
%
% My subcaption style
\makeatletter
\newcommand{\mysubcaption}[2][\@empty]{
	\subcaptionsize{\small}
	\hangsubcaption
	\subcaptionlabelfont{\rmfamily}
	\sidecapstyle{\raggedright}
	\setlength{\belowcaptionskip}{10pt}
	\ifx \@empty#1 \subcaption{#2}\else \subcaption[#1]{#2}
}
\makeatother
%
%An initial of the very first character of the content
\usepackage{lettrine}
\newcommand{\initial}[1]{%
	\lettrine[lines=3,lhang=0.33,nindent=0em]{
		\color{gray}
     		{\textsc{#1}}}{}}
\makeatother

\DeclareMathAlphabet{\mathcal}{OMS}{cmsy}{m}{n} % for nicer looking mathcal fonts
\DeclareMathOperator*{\argmax}{arg\,max}
\DeclareMathOperator*{\argmin}{arg\,min}

\newcommand{\Exp}[2][]{\mathbb{E}_{#1}\!\left[#2\right]}
\newcommand{\Var}[2][]{\mathrm{Var}_{#1}\!\left(#2\right)}
\newcommand{\Bern}[1]{\mathrm{Bernoulli}\!\left(#1\right)}
\newcommand{\Prob}[1]{\mathbb{P}\!\left(#1\right)}
\newcommand{\summ}[3][1]{\sum_{#2=#1}^{#3}}
\newcommand{\iid}{\overset{\text{iid}}{\sim}}
\newcommand{\N}[2][0]{\mathcal{N}\!\left(#1, #2\right)}
\newcommand{\Ind}[1]{\mathbbm{1}{\left\{#1\right\}}}
\newcommand{\CInd}[2]{\mathbbm{1}{\left\{#1\, \vert \, #2\right\}}}
\newcommand{\CProb}[2]{\mathbb{P}\left(#1 \, \vert \, #2\right)}
\newcommand{\CExp}[2]{\mathbb{E}\left[#1 \, \vert \, #2\right]}
\newcommand{\X}{\mathbf{X}}
\newcommand{\by}{\mathbf{y}}
\newcommand{\bx}{\mathbf{x}}
\newcommand{\bu}{\mathbf{u}}
\newcommand{\tmu}{\tilde{\mu}}
\newcommand{\tsigma}{\tilde{\sigma}^2}
\newcommand{\ugm}{\textnormal{\textmu g m}^{-3}}
\newcommand{\um}{\textnormal{\textmu m}}
\newcommand{\kgm}{\textnormal{kg m}^{-3}}
\newcommand{\kgs}{\textnormal{kg s}^{-1}}
\newcommand{\kgms}{\textnormal{kg m}^{-1}\textnormal{s}^{-1}}
\newcommand{\kgkms}{\textnormal{kg km}^{-1}\textnormal{s}^{-1}}
\newcommand{\mss}{\textnormal{m s}^{-2}}
\newcommand{\logt}{\log_{10}}
\newcommand{\solve}[1]{\textsc{solve}\left(#1\right)}
\newcommand{\pstrat}{\hat{p}_{\textrm{strat}}}
\newcommand{\soufr}{Soufri\`ere}
\newcommand{\lasoufr}{La Soufri\`ere}
\newcommand{\eyja}{Eyjafjallaj{\"o}kull}
\newcommand{\grimsvotn}{Gr\'{\i}msv\"{o}tn}
\newcommand{\dd}{\textnormal{d}}
\newcommand{\pdt}[1][]{\frac{\partial}{\partial t}}

\newcommand{\doiurl}[1]{\href{https://doi.org/#1}{#1}}
% Theorem styles used in my thesis

%
\theoremstyle{plain}
\newtheorem{theorem}{Theorem}[chapter]
\theoremstyle{plain}
\newtheorem{proposition}{Proposition}[chapter]
\theoremstyle{plain}
\theoremstyle{definition}
\newtheorem{definition}{Definition}[chapter]
\theoremstyle{plain}
\newtheorem{lemma}{Lemma}[chapter]
\theoremstyle{plain}
\newtheorem{corollary}{Corollary}[chapter]
\theoremstyle{plain}
\newtheorem{resu}{Result}[chapter]
\theoremstyle{plain}
\newtheorem{remark}{Remark}[chapter]
\theoremstyle{plain}
\newtheorem{example}{Example}[chapter]

%
% Hyphenation for some words
%
\hyphenation{res-pec-tively}
\hyphenation{mono-ti-ca-lly}
\hyphenation{hypo-the-sis}
\hyphenation{para-me-ters}
\hyphenation{sol-va-bi-li-ty}
\hyphenation{vol-ca-nic}
\hyphenation{quan-ti-fying}
\hyphenation{ex-cee-dance}

\hbadness=10000
\vbadness=10000

\makeatletter
\renewcommand{\@pnumwidth}{2em}
\renewcommand{\@tocrmarg}{3em}
\makeatother