% John Janetzko (Ph.D. 2017) thanks those who came before him:
% This TeX template is a modified hand-me-down from:
% Jacob Sanders (Ph.D. 2016) who received it from... 
% Ryan Babbush (Ph.D. 2015) who received it from...
% Ivan Kassal (Ph.D. 2010) who received it from... 
% Alex Barnett (Ph.D. 2000) who received it from...
% Adam Lupu-Sax (Ph.D. 1998) who I guess made it.
%
%
% this is the custom fltpage2.sty for Harvard style full page figures
%\usepackage[CaptionBefore]{fltpage2}
%
%
\documentclass[11pt,oneside,final]{huthesis}
% this makes the figure caption in bold text
\usepackage[labelfont=bf]{caption}
%
\usepackage{amssymb,amsmath,amsfonts,amsthm}
\usepackage{graphicx,float}
\usepackage{booktabs,tabularx}
\usepackage{subcaption}
\usepackage[section]{placeins}
\usepackage{algorithm,algorithmic}
\usepackage{hyperref,verbatim}
%
\usepackage{varioref}
\usepackage{xr}
\usepackage{longtable}
\usepackage{tocloft}
\usepackage{pdflscape}
\usepackage{rotating}
%
\usepackage[english]{babel}
\usepackage{thmtools}
\usepackage{thm-restate}
\usepackage{epic,array}
\usepackage{multirow}
\usepackage{fmtcount}
\usepackage{bm}
%
\usepackage{seqsplit}
\usepackage{xr}
\usepackage{rotating}
\usepackage[normalem]{ulem}
%
\usepackage{pgfplots}
%
\usepackage{pdfpages}
\pgfplotsset{compat=newest}
\usepgfplotslibrary{groupplots}
\usepackage{pgfplotstable}
\usepackage{colortbl}
%
\usepackage{tikz}
\usetikzlibrary{shapes,arrows,chains,scopes,positioning,decorations.markings}
%
%\input{mathdefs} % Various shortcuts
\DeclareGraphicsRule{.eps}{eps}{.eps}{}
%
\newcommand{\blankpage}{\vspace*{\fill}
\hfill
\begin{center}
%This page intentionally left blank.
\end{center}
\vspace{\fill}
%\thispagestyle{empty}
\newpage
}
% Underlying spacing for the whole document:
% \ssp 	% Single spaced.
% \hsp  % Intermediate spacing
% \dsp  % Double spacing (GSAS requirement)
\dsp
\begin{document}
%
\renewcommand {\vec} [1] {{\bm #1}}
\newcommand{\ff}{g}
\newcommand{\tf}{h}
\newcommand{\wtau}{\omega}
\newcommand{\wte}{w}
\newcommand{\mat}[1]{#1}
\newcommand{\noise}{\eta}
\newcommand{\angstrom}{\mbox{\normalfont\AA}}
%
\include{frontmatter}
%
\include{intro/intro}
%
\include{hcfiscleaved/hcfiscleaved}
%
\include{mechanism/mechanism}
%
\include{aspartate/aspartate}
%
\include{conclusion/conclusion}
%
\appendix
%Supplementary Figures
\include{appendix0/appendix0}
%Supplementary Tables
\include{appendix/appendix}
%Abbreviations
\include{appendix2/appendix2}
%
%FYI, you can also use input instead of include.
%
%Bibliography:
{
\ssp % Single spacing
\bibliographystyle{thesis}
\bibliography{biblio}
}
%
\end{document}