%----------------------------------------------------------------------------------------
% DOCUMENT CONFIGURATIONS
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\documentclass[
11pt, % The default document font size, options: 10pt, 11pt, 12pt
oneside, % Two side (alternating margins) for binding by default, uncomment to switch to one side
english, % other languages available
% singlespacing, % Single line spacing, alternatives: onehalfspacing or doublespacing
onehalfspacing, % Single line spacing, alternatives: onehalfspacing or doublespacing
%draft, % Uncomment to enable draft mode (no pictures, no links, overfull hboxes indicated)
%nolistspacing, % If the document is onehalfspacing or doublespacing, uncomment this to set spacing in lists to single
%liststotoc, % Uncomment to add the list of figures/tables/etc to the table of contents
%toctotoc, % Uncomment to add the main table of contents to the table of contents
]{McMasterThesis} % The class file specifying the document structure
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% Import packages here
%----------------------------------------------------------------------------------------
\usepackage[utf8]{inputenc} % Required for inputting international characters
\usepackage[T1]{fontenc} % Output font encoding for international characters
\usepackage{lmodern} % could change font type by calling a different package
\usepackage{lastpage} % count pages
\usepackage{siunitx} % for scientific units (micro-liter, etc)
\setcounter{tocdepth}{2} % so that only section and sub sections appear in Table of Contents. Remove or set depth to 3 to include sub-sub-sections
\usepackage{rotating} % rotating table and figure
\usepackage[T1]{fontenc}
\usepackage[utf8]{inputenc}
%% Text box -----------------------
\usepackage{mdframed} % text box
% all 4 borders
\newmdenv{allfour}
% just top and bottom
\newmdenv[leftline=false,rightline=false]{topbot}
% just left and bottom
\newmdenv[topline=false,rightline=false]{leftbot}
%% Stylist Text Boxe
\usepackage[many]{tcolorbox}
% \definecolor{main}{HTML}{5989cf} % setting main color to be used
% \definecolor{sub}{HTML}{cde4ff} % setting sub color to be used
\tcbset{
sharp corners,
% colback = white,
before skip = 0.2cm, % add extra space before the box
after skip = 0.5cm % add extra space after the box
} % setting global options for tcolorbox
\newtcolorbox{boxK}{
center,
width=5.2in,
% height=0.9in,
% sharpish corners, % better drop shadow
boxrule = 0pt,
toprule = 0pt, % top rule weight
% enhanced,
% fuzzy shadow = {0pt}{-2pt}{-0.5pt}{0.5pt}{black!35} % {xshift}{yshift}{offset}{step}{options}
}
%% Blind tex
\usepackage{blindtext}
%----------------------------------------------------------------------------------------
% Chapter wise Citations
%----------------------------------------------------------------------------------------
\usepackage[sectionbib]{natbib}
\usepackage{chapterbib}
%%% Uncomment if you change the bibliography heading/title
\renewcommand{\bibname}{References}
%%% Uncomment if you want to include the bibliographies at the end of each chapter in the table of contents.
\usepackage[nottoc]{tocbibind}
%----------------------------------------------------------------------------------------
% Collect all your header information from the chapters here, things like acronyms, custom commands, necessary packages, etc.
%----------------------------------------------------------------------------------------
\usepackage{parskip} %this will put spaces between paragraphs
\setlength{\parindent}{15pt} % this will create and indent on all but the first paragraph of each section.
% should maybe change to glossaries package
\usepackage{acro}
\DeclareAcronym{est}{
short = EST,
long = expressed sequence tags
}
\DeclareAcronym{Xl}{
short = \textit{X.~laevis},
long = \textit{Xenopus~laevis}
}
\DeclareAcronym{Xg}{
short = \textit{X.~gilli},
long = \textit{Xenopus~gilli}
}
\usepackage{etoolbox}
\preto\chapter{\acresetall} % resets acronyms for each chapter
\usepackage{xspace} %helps spacing with custom commands.
\newcommand{\oddname}{{\sc SoME goOfY LonG ThiNg With an AwkWarD NAme}\xspace}
\usepackage{pgfplotstable} % a much better way to handle tables
\pgfplotsset{compat=1.12}
%----------------------------------------------------------------------------------------
% THESIS INFORMATION
%----------------------------------------------------------------------------------------
%% Thesis Title (Choose only one) --------------
% \thesistitle{Big Data Clustering Models and Applications in Research and Subscription-based Platforms} % Your thesis title, print it elsewhere with \ttitle
% \thesistitle{Large-Scale Data Clustering Models with Applications in Research and Subscription-based Platforms} % Your thesis title, print it elsewhere with \ttitle
% \thesistitle{Big Data Clustering Models with Applications in Research and Subscription-based Invoicing Platforms} % Your thesis title, print it elsewhere with \ttitle
\thesistitle{Your Long Thesis Title} % Your thesis title, print it
%% -------------------------------
\supervisor{XXX XXXX} % Your supervisor's name, print it elsewhere with \supname
\examiner{} % Your examiner's name, print it elsewhere with \examname
\degree {Doctor of Philosophy} % Your degree name, print it elsewhere with \degreename
\shortdegree{Ph.D.}
\subjectarea{Computational Science and Engineering} % Your degree area name, print it elsewhere with \area
\author{John Doe} % Your name, print it elsewhere with \authorname
\addresses{} % Your address, print it elsewhere with \addressname
\subject{Computational Science \& Engineering} % Your subject area, print it elsewhere with \subjectname
\keywords{} % Keywords for your thesis, print it elsewhere with \keywordnames
\university{\href{http://www.mcmaster.ca/}{McMaster University}} % Your university's name and URL, print it elsewhere with \univname
\department{\href{https://computational.mcmaster.ca/}{Computational Science \& Engineering}} % Your department's name and URL, print it elsewhere with \deptname
\group{\href{http://www.science.mcmaster.ca/}{Research Group Name}} % Your research group's name and URL, print it elsewhere with \groupname
\faculty{\href{http://www.science.mcmaster.ca/}{Faculty of Science}} % Your faculty's name and URL, print it elsewhere with \facname
% this sets up hyperlinks
\hypersetup{pdftitle=\ttitle} % Set the PDF's title to your title
\hypersetup{pdfauthor=\authorname} % Set the PDF's author to your name
\hypersetup{pdfkeywords=\keywordnames} % Set the PDF's keywords to your keywords
%----------------------------------------------------------------------------------------
% Begin document
%----------------------------------------------------------------------------------------
\begin{document}
\frontmatter
\frontmatter % Use roman page numbering style (i, ii, iii, iv...) for the pre-content pages
\pagestyle{plain} % Default to the plain heading style until the thesis style is called for the body content
%----------------------------------------------------------------------------------------
% Half Title (lay title).
% 60 Characters with spaces
%----------------------------------------------------------------------------------------
%\begin{halftitle} % could not get this environment working
%\vspace*{\fill}
\vspace*{2.5in}
\begin{center}
\LARGE \textsc{Short Title Less Than 60 Characters}% ideally, but it doesn't seem to matter
\end{center}
%\vspace*{\fill}
\vfill
\pagenumbering{gobble} % leave this here, McMaster doesn't want this page numbered
%\end{halftitle}
\clearpage
%----------------------------------------------------------------------------------------
% TITLE PAGE
%----------------------------------------------------------------------------------------
\pagenumbering{gobble}
\begin{center}
\vfill
\textsc{\Large \ttitle} \\
\vspace{50pt}
\vfill
By\\
\uppercase\expandafter{\authorname},\\
M.Sc. (Computer Science)\\%% -----> List prior degrees after comma <----
\vspace{50pt}
\vfill
{\large A Thesis Submitted to the School of Graduate Studies\\ in the Partial Fulfillment of the Requirements for the Degree of}\\
\vspace{30pt}
\vfill
{\large \degreename}\\ % \vspace{15pt}
{\large in}\\ %\vspace{15pt}
{\large \subjectareaname}\\
\vfill
\vfill
\vspace{50pt}
{\large \univname\, \\ Hamilton, Ontario}\\[4cm] % replace \today with the submission date
{\copyright\, Copyright by \authorname,\, \today}\\[4cm] % replace \today with the submission date
\end{center}
%----------------------------------------------------------------------------------------
% Descriptive note numbered ii
%----------------------------------------------------------------------------------------
% Need to add below info
\newpage
\pagenumbering{roman} % leave to turn numbering back on
\setcounter{page}{2} % leave here to make this page numbered ii, a Grad School requirement
\noindent % stops indent on next line
\degreename\, (\the\year) \\
\deptname \\
\univname \\
Hamilton, Ontario, Canada \\[1.5cm]
TITLE: \ttitle
\\ \\
AUTHOR:\\ \authorname, \\
M.Sc. (Computer Science)\,\\ %list previous degrees
\\ \\
SUPERVISOR:\\
\supname\,\\
Professor, Department or School Name, \\
McMaster University, ON, Canada
\\
\\
SUPERVISORY COMMITTEE CHAIR: \\
Dr. XXX XXXX,\\
Professor, Department or School Name, \\
McMaster University, ON, Canada
\\
\\
SUPERVISORY COMMITTEE MEMBERS: \\Dr. XXX XXXX\\
Professor, Department or School Name, \\
McMaster University, ON, Canada
\\
\\
Dr. XXX XXXXX\\
Professor, Department or School Name, \\
McMaster University
\\
\\
NUMBER OF PAGES: \pageref{lastoffront}, \pageref{LastPage} % put in iv and number
\clearpage
%----------------------------------------------------------------------------------------
% ABSTRACT PAGE
%----------------------------------------------------------------------------------------
\section*{\Huge Abstract}
\addchaptertocentry{Abstract}
% Type your abstract here.
An abstract!
\clearpage
%----------------------------------------------------------------------------------------
% ACKNOWLEDGEMENTS
%----------------------------------------------------------------------------------------
% \begin{acknowledgements}
% \addchaptertocentry{\acknowledgementname} % Add the acknowledgements to the table of contents
% The acknowledgements and the people to thank go here, don't forget to include your project adviser\ldots
% \end{acknowledgements}
\section*{\Huge \centering Acknowledgements}
\addchaptertocentry{Acknowledgements}
\vspace{20pt}
\hspace{\parindent}Your acknowledgement goes here ....
\clearpage
%----------------------------------------------------------------------------------------
% LIST OF CONTENTS/FIGURES/TABLES PAGES
%----------------------------------------------------------------------------------------
\tableofcontents % Prints the main table of contents
\listoffigures % Prints the list of figures
\listoftables % Prints the list of tables
%----------------------------------------------------------------------------------------
% DECLARATION PAGE
%----------------------------------------------------------------------------------------
\begin{declaration}
% \addchaptertocentry{\authorshipname}
\noindent I, \authorname, declare that this thesis titled, \textbf{\ttitle}, and works presented in it are my own. I confirm that
\begin{itemize}
\item List each chapter
\item and what you have done for it
\end{itemize}
\end{declaration}
%----------------------------------------------------------------------------------------
% The following bit is just here to make sure we end up on a new page and get the total number of roman numeral
\label{lastoffront}
\clearpage
% make sure this command is on the last of your frontmatter pages, i.e. only this command, a \clearpage then \mainmatter
% should be fine without modification
%----------------------------------------------------------------------------------------
%----------------------------------------------------------------------------------------
% THESIS CONTENT - CHAPTERS
%----------------------------------------------------------------------------------------
\mainmatter % Begin numeric (1,2,3...) page numbering
\pagestyle{thesis}
\include{chap1}
\include{chap2}
%----------------------------------------------------------------------------------------
% THESIS CONTENT - APPENDICES
%----------------------------------------------------------------------------------------
\appendix % Cue to tell LaTeX that the following "chapters" are Appendices
\renewcommand{\thetable}{A\arabic{chapter}.\arabic{table}} % adds an A to table names in appendix (Table A1.1, A1.2...)
\renewcommand{\thefigure}{A\arabic{chapter}.\arabic{figure}} % same for figures
\renewcommand{\thesection}{A\arabic{section}}
% Include the appendices of the thesis as separate files from the Appendices folder
% \input{Appendix/Supp_Chap3.tex}
% \backmatter
% %% A list of publications can be created using this approach
% \include{ownpubs}
\end{document}
