% !TeX program = pdflatex
% !BIB program = biber
% !TeX root = main.tex
% =============================================================================
% MAIN.TEX — Master document for the ANU MAE Thesis
% =============================================================================
%
% This file controls the overall structure of your thesis.
% Write your chapter content in the individual .tex files, not here.
%
% HOW TO COMPILE
% Overleaf: click Recompile (Menu → Compiler → pdfLaTeX)
% TeXstudio: press F5 (Build & View) — see README for one-time setup
% Terminal: latexmk main.tex
%
% =============================================================================
% =============================================================================
% DOCUMENT FORMAT — activate ONE option by removing the leading %
% Also update the matching geometry line in preamble.tex (same option number).
% =============================================================================
%
% OPTION 1 — Digital submission (default)
% All margins 2.5 cm. Single-sided layout.
\documentclass[a4paper, 11pt, oneside]{book}
%
% OPTION 2 — Hard copy, single-sided printing
% Wider left margin for binding. See preamble.tex Option 2 for margins.
% \documentclass[a4paper, 11pt, oneside]{book}
%
% OPTION 3 — Hard copy, double-sided printing
% Wider inner (binding) margin on every page. See preamble.tex Option 3 for margins.
% \documentclass[a4paper, 11pt, twoside]{book}
%
% =============================================================================
\input{preamble}
\begin{document}
% =============================================================================
% FRONT MATTER — Roman numeral page numbers (i, ii, iii...)
% =============================================================================
\frontmatter
\pagestyle{plain}
\include{titlepage/titlepage}
\input{front_matter/originality_statement}
\input{front_matter/acknowledgement}
% Main table of contents — shows chapter titles only (tocdepth=0).
% Each chapter has its own local TOC showing sections and subsections.
\setcounter{tocdepth}{0}
\setcounter{secnumdepth}{0}
\tableofcontents
\input{front_matter/abstract}
% Abbreviations list — generated automatically from abbreviations.tex.
% No manual updates needed; just define abbreviations in abbreviations.tex.
\input{front_matter/abbreviations_static}
% =============================================================================
% MAIN MATTER — Arabic page numbers restart at 1
% =============================================================================
\mainmatter
\pagestyle{fancy}
% TO REORDER CHAPTERS: move \include lines into the order you want.
% TO REMOVE A CHAPTER: comment out its line with % at the start.
% TO ADD A CHAPTER: copy an \include line and point it to your new .tex file.
\include{experience/experience}
\include{data_analysis/data_analysis}
\include{surveillance/surveillance}
\include{epistudy/epistudy}
\include{outbreak/outbreak}
\include{teaching/teaching}
\end{document}

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