thesis.tex

%\documentclass[12pt,openright]{report}
\documentclass[12pt,twoside,openright]{report}
\pdfoutput=1 % ensure that arXiv uses pdflatex
% note that the documentclass can take other option such as
% twoside - for double sided printing
% openright - if double side  chapters always start on odd pages
% openany - if double side chapters start on the next page even or odd
% 12pt can be replaced by 11pt


\usepackage[online]{suthesis-2e}
\usepackage{amsmath}
\usepackage{amssymb}
\usepackage{amsthm}
\usepackage{bbm} %for indicator function
\usepackage{enumerate}
\usepackage{epsfig}
\usepackage{perry-thesis-macros}
\usepackage{tikz}
\usepackage{mathrsfs}
\usepackage{unicode-math} %to fix lualatex black bug http://tex.stackexchange.com/questions/61952/problem-compiling-some-math-using-lualatex
%\usepackage{breqn} %because \left and \right can't go on multiple lines
\usepackage{natbib}

\DeclareGraphicsExtensions{.png,.pdf,.tex}

\newcommand{\dirsep}{/}
\newcommand{\dirprefix}{}
\newcommand{\thesischapter}[1]{\dirprefix #1\dirsep #1}
\newcommand{\includechapter}[1]{
    \graphicspath{{\dirprefix #1\dirsep plots\dirsep}}
    \include{\thesischapter{#1}}
}
\renewcommand{\bibname}{References}
\providecommand{\norm}[1]{\lVert#1\rVert}

\newtheorem{theorem}{Theorem}
\newtheorem{assumption}[theorem]{Assumption}
\newtheorem{conjecture}[theorem]{Conjecture}
\newtheorem{corollary}[theorem]{Corollary}
\newtheorem{definition}[theorem]{Definition}
\newtheorem{lemma}[theorem]{Lemma}
\newtheorem{remark}[theorem]{Remark}
\newtheorem{proposition}[theorem]{Proposition}
\newtheorem*{thma}{Theorem 1.8}

\numberwithin{equation}{chapter}
\numberwithin{algorithm}{chapter}
\numberwithin{theorem}{chapter}

\title{Topics in Two-Sample Testing}
\author{Nelson C. Ray}
\submitdate{May 2013}
\copyrightyear{2013}
\dept{Statistics}
\principaladviser{Susan P. Holmes}
\firstreader{Persi W. Diaconis}
\secondreader{Bradley Efron}
\thirdreader{Jerome H. Friedman}

\includeonly{
  acknowledgment,
  {\thesischapter{introduction}},
  {\thesischapter{steins-method}},
  {\thesischapter{stein-proof}},
  {\thesischapter{simulations}},
  {\thesischapter{friedman-test}},
  {\thesischapter{MKL}},
  {\thesischapter{auxiliary-app}},
  {\thesischapter{steins-method-app}},
  {\thesischapter{stein-proof-app}}%,
  %bibliography
}


\begin{document}

\beforepreface

\prefacesection{Abstract}
\input{abstract}

\include{acknowledgment}

%\figurespagefalse
%\tablespagefalse
\afterpreface

\includechapter{introduction}
\includechapter{steins-method}
\includechapter{stein-proof}
\includechapter{simulations}
\includechapter{friedman-test}
\includechapter{MKL}

\appendix
\includechapter{auxiliary-app}
\includechapter{steins-method-app}
\includechapter{stein-proof-app}
\bibliographystyle{plain}
\bibliography{ncray}
%\onlinesignature
\end{document}