main.tex

\documentclass[12pt, letterpaper]{article}

%%%%%%%%%%% Packages %%%%%%%%%%%
\usepackage[utf8]{inputenc}
\usepackage{newtxtext} % requires XeLaTeX
\usepackage{amsmath, amsfonts, amssymb}
\usepackage{relsize}
\usepackage{exscale}
\numberwithin{equation}{section}
\usepackage{graphicx}
\usepackage{caption}
\usepackage{subcaption}
\usepackage{setspace}
\usepackage{sectsty}
\usepackage{tocloft}
\usepackage{fancyhdr}

%%%%%%%%% Citation style %%%%%%%%%
\usepackage{natbib} % for author-year citations
% \usepackage[square,numbers]{natbib} % for numbered citations
%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%

\usepackage{notoccite}
\usepackage{indentfirst}
\usepackage{newtxtext}
\usepackage{tabularx, booktabs}
\usepackage{multirow}
\usepackage[author={Sunip M}]{pdfcomment}
\usepackage{xfrac}
%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%

\sectionfont{\Large}
\subsectionfont{\normalsize}
\subsubsectionfont{\normalsize}

\usepackage[rgb]{xcolor}
\setlength {\marginparwidth }{2cm}
\usepackage{todonotes}

\usepackage{verbatim}
\newenvironment{metaverbatim}{\verbatim}{\endverbatim}

%%%%%%%%%%%% Source Code Inclusion %%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
% Uncomment the following to include source code with native markup
% \usepackage{lmodern}
% \usepackage{minted} % requires Pygments (pip install pygments), and also requires a valid Python Environment
%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%

\usepackage{rotating}
\usepackage{enumerate}
\usepackage{enumitem}
\usepackage{nicefrac}

\usepackage[margin=1in]{geometry}
\geometry{
	letterpaper,
	left=1.5in,
	right=1.0in,
	top=1.0in,
	bottom=1.0in
}

\usepackage{pdflscape}
\usepackage{wrapfig}
\usepackage{afterpage}

\usepackage[scale=0.94]{tgbonum}
\usepackage[mode=text]{siunitx}

\usepackage{etoolbox}

\makeatletter
	\renewcommand{\cftsecleader}{\cftdotfill{\cftdotsep}}
\makeatother

\makeatletter
\DeclareTextCompositeCommand{\r}{OT1}{A}{%
  \leavevmode\vbox{%
	\offinterlineskip
	\ialign{\hfil##\hfil\cr\char23\cr\noalign{\kern-1.15ex}A\cr}%
  }%
}
\makeatother

\newcommand{\MONTH}{%
  \ifcase\the\month
  \or January% 1
  \or February% 2
  \or March% 3
  \or April% 4
  \or May% 5
  \or June% 6
  \or July% 7
  \or August% 8
  \or September% 9
  \or October% 10
  \or November% 11
  \or December% 12
  \fi}

%%%%%%%%%%%%%%%%%%% Fancy arrays %%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
\usepackage{array, makecell}
\renewcommand\theadfont{\normalsize\bfseries}
\newcolumntype{C}{>{\raggedright\arraybackslash}X}
%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%

%%%%%%%%%%%%%%%%%%% Hyperlink Formatting %%%%%%%%%%%%%%%%%%%%%%%%%
\hypersetup{
    colorlinks,
    linkcolor={red!70!black},
    citecolor={blue!75!black},
    urlcolor={blue!85!black}
}
%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%

%%%%%%%%%%%%%%%%%%% Depth of ToC %%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
\setcounter{tocdepth}{5} % table of contents depth
\setcounter{secnumdepth}{5} % section numbering depth

\newcommand{\myparagraph}[1]{\paragraph{#1}\mbox{}\\} % chapter depth 4
%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%

%%%%%%%%%%%%%%%%%%% Figure and table numbering %%%%%%%%%%%%%%%%%%%
\renewcommand{\thefigure}{\arabic{section}.\arabic{figure}}
\renewcommand{\thetable}{\arabic{section}.\arabic{table}}
%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%

%%%%%%%%% Author Info %%%%%%%%%%
\newcommand{\thesistitle}{Dissertation Title}
\newcommand{\thesisauthor}{Author Name}
\newcommand{\thesisyear}{\the\year{}} % replace \the\year{} with the year of submission
\newcommand{\thesismonth}{\MONTH{}} % replace \MONTH{} with the month of submission
\newcommand{\thesissup}{Supervisor Name}
\newcommand{\thesisdept}{Physics and Applied Physics}
\newcommand{\thesisdegree}{Doctor of Philosophy}
\newcommand{\thesisdegreeprogram}{Physics Program} % leave empty if not applicable
%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%

%%%%%%%%% Custom Settings %%%%%%%%%%
% add custom settings here. Such as, a custom graphics path.
% \graphicspath{{./figures/}}
%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%

\begin{document}

\include{coverpage} % cover page (do not edit)
\include{copyright} % copyright page (do not edit)
\include{sigpage} % signature page (edit to add more committee members)
\include{abstitle} % abstract title page (do not edit)

\include{abs} % abstract
\include{ack} % acknowledgements (optional)

\input{toc} % table of contents (do not edit)
\include{lot} % list of tables (do not edit)
\include{lof} % list of figures (do not edit)

\include{1_intro} % introduction
\include{2_method} % methodology
\include{3_results} % results
\include{4_disc} % discussion
\include{5_conc} % conclusions

\input{ref} % references (do not edit)
\bibliography{bibfile} % bibliography file
 
\bibliographystyle{astroads}

%%%%%%%%%%%%%%%% Optional Appendix Section %%%%%%%%%%%%%%%%%%%

\appendix
\renewcommand{\thefigure}{\Alph{section}.\arabic{figure}}
\renewcommand{\thetable}{\Alph{section}.\arabic{table}}
\include{appendix}

%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%

\end{document}