\PassOptionsToPackage{unicode=true}{hyperref} % options for packages loaded elsewhere
\PassOptionsToPackage{hyphens}{url}
\documentclass[$if(fontsize)$$fontsize$,$endif$$if(lang)$$babel-lang$,$endif$$if(handout)$handout,$endif$$if(colorlinks)$dvipsnames,$endif$$if(beamer)$ignorenonframetext,$endif$$for(classoption)$$classoption$$sep$,$endfor$]{$documentclass$}
\IfFileExists{pgfpages.sty}{\usepackage{pgfpages}}{}
\setbeamertemplate{caption}[numbered]
\setbeamertemplate{caption label separator}{: }
\setbeamercolor{caption name}{fg=normal text.fg}
\beamertemplatenavigationsymbols$if(navigation)$$navigation$$else$empty$endif$
$for(beameroption)$
\setbeameroption{$beameroption$}
$endfor$
$if(fontfamily)$
\usepackage[$for(fontfamilyoptions)$$fontfamilyoptions$$sep$,$endfor$]{$fontfamily$}
$else$
\usepackage{lmodern}
$endif$
\usepackage{amssymb}
\usepackage{amsmath}
\usepackage{ifxetex,ifluatex}
\usepackage{fixltx2e} % provides \textsubscript
\ifnum 0\ifxetex 1\fi\ifluatex 1\fi=0 % if pdftex
  \usepackage[$if(fontenc)$$fontenc$$else$T1$endif$]{fontenc}
  \usepackage[utf8]{inputenc}
$if(euro)$
  \usepackage{eurosym}
$endif$
\else % if luatex or xelatex
  \ifxetex
    \usepackage{mathspec}
  \else
    \usepackage{fontspec}
\fi
\defaultfontfeatures{Ligatures=TeX,Scale=MatchLowercase}

$for(fontfamilies)$
  \newfontfamily{$fontfamilies.name$}[$fontfamilies.options$]{$fontfamilies.font$}
$endfor$

$if(euro)$
  \newcommand{\euro}{€}
$endif$

$if(mainfont)$
  \setmainfont[$for(mainfontoptions)$$mainfontoptions$$sep$,$endfor$]{$mainfont$}
$endif$

$if(sansfont)$
  \setsansfont[$for(sansfontoptions)$$sansfontoptions$$sep$,$endfor$]{$sansfont$}
$endif$

$if(monofont)$
  \setmonofont[Mapping=tex-ansi$if(monofontoptions)$,$for(monofontoptions)$$monofontoptions$$sep$,$endfor$$endif$]{$monofont$}
$endif$

%$if(mathfont)$
%  \setmathfont(Digits,Latin,Greek)[$for(mathfontoptions)$$mathfontoptions$$sep$,$endfor$]{$mathfont$}
%$endif$

$if(CJKmainfont)$
  \usepackage{xeCJK}
  \setCJKmainfont[$for(CJKoptions)$$CJKoptions$$sep$,$endfor$]{$CJKmainfont$}
$endif$
\fi

$if(theme)$
  \usetheme[$for(themeoptions)$$themeoptions$$sep$,$endfor$]{$theme$}
$endif$

$if(colortheme)$
  \usecolortheme{$colortheme$}
$endif$

$if(fonttheme)$
  \usefonttheme{$fonttheme$}
$endif$

$if(mainfont)$
  \usefonttheme{serif} % use mainfont rather than sansfont for slide text
$endif$

$if(innertheme)$
  \useinnertheme{$innertheme$}
$endif$

$if(outertheme)$
  \useoutertheme{$outertheme$}
$endif$

% use upquote if available, for straight quotes in verbatim environments
\IfFileExists{upquote.sty}{\usepackage{upquote}}{}
% use microtype if available
\IfFileExists{microtype.sty}{%
  \usepackage{microtype}
  \UseMicrotypeSet[protrusion]{basicmath} % disable protrusion for tt fonts
}{}

$if(lang)$
\ifnum 0\ifxetex 1\fi\ifluatex 1\fi=0 % if pdftex
  \usepackage[shorthands=off,$for(babel-otherlangs)$$babel-otherlangs$,$endfor$main=$babel-lang$]{babel}
  $if(babel-newcommands)$
    $babel-newcommands$
  $endif$
\else
  \usepackage{polyglossia}
  \setmainlanguage[$polyglossia-lang.options$]{$polyglossia-lang.name$}
  $for(polyglossia-otherlangs)$
    \setotherlanguage[$polyglossia-otherlangs.options$]{$polyglossia-otherlangs.name$}
  $endfor$
\fi
$endif$

\newif\ifbibliography
$if(natbib)$
  \usepackage[round]{natbib}
  \bibliographystyle{$if(biblio-style)$$biblio-style$$else$plainnat$endif$}
$endif$
$if(biblatex)$
  \usepackage[$if(biblio-style)$style=$biblio-style$,$endif$$for(biblatexoptions)$$biblatexoptions$$sep$,$endfor$]{biblatex}
  $for(bibliography)$
    \addbibresource{$bibliography$}
  $endfor$
$endif$

$if(verbatim-in-note)$
\usepackage{fancyvrb}
$endif$

\hypersetup{
  $if(title-meta)$
    pdftitle={$title-meta$},
  $endif$
  $if(author-meta)$
    pdfauthor={$author-meta$},
  $endif$
  $if(keywords)$
    pdfkeywords={$for(keywords)$$keywords$$sep$, $endfor$},
  $endif$
  $if(colorlinks)$
    colorlinks=true,
    linkcolor=$if(linkcolor)$$linkcolor$$else$Maroon$endif$,
    citecolor=$if(citecolor)$$citecolor$$else$Blue$endif$,
    urlcolor=$if(urlcolor)$$urlcolor$$else$Blue$endif$,
  $else$
    pdfborder={0 0 0},
  $endif$
  breaklinks=true}
%\urlstyle{same}  % Use monospace font for urls

$if(verbatim-in-note)$
  \VerbatimFootnotes % allows verbatim text in footnotes
$endif$

$if(listings)$
  \usepackage{listings}
$endif$

$if(lhs)$
  \lstnewenvironment{code}{\lstset{language=Haskell,basicstyle=\small\ttfamily}}{}
$endif$

$if(highlighting-macros)$
  $highlighting-macros$
$endif$

$if(tables)$
  \usepackage{longtable,booktabs}
  \usepackage{caption}
  % These lines are needed to make table captions work with longtable:
  \makeatletter
  \def\fnum@table{\tablename~\thetable}
  \makeatother
$endif$

$if(graphics)$
  \usepackage{graphicx,grffile}
  \makeatletter
  \def\maxwidth{\ifdim\Gin@nat@width>\linewidth\linewidth\else\Gin@nat@width\fi}
  \def\maxheight{\ifdim\Gin@nat@height>\textheight0.8\textheight\else\Gin@nat@height\fi}
  \makeatother
  % Scale images if necessary, so that they will not overflow the page
  % margins by default, and it is still possible to overwrite the defaults
  % using explicit options in \includegraphics[width, height, ...]{}
  \setkeys{Gin}{width=\maxwidth,height=\maxheight,keepaspectratio}
$endif$

% Prevent slide breaks in the middle of a paragraph:
\widowpenalties 1 10000
\raggedbottom

$if(section-titles)$
  \AtBeginPart{
    \let\insertpartnumber\relax
    \let\partname\relax
    \frame{\partpage}
  }
  \AtBeginSection{
    \ifbibliography
    \else
      \let\insertsectionnumber\relax
      \let\sectionname\relax
      \frame{\sectionpage}
    \fi
  }
  \AtBeginSubsection{
    \let\insertsubsectionnumber\relax
    \let\subsectionname\relax
    \frame{\subsectionpage}
  }
$endif$

$if(links-as-notes)$
  % Make links footnotes instead of hotlinks:
  \renewcommand{\href}[2]{#2\footnote{\url{#1}}}
$endif$

$if(strikeout)$
  \usepackage[normalem]{ulem}
  % avoid problems with \sout in headers with hyperref:
  \pdfstringdefDisableCommands{\renewcommand{\sout}{}}
$endif$

\setlength{\parindent}{0pt}
\setlength{\parskip}{6pt plus 2pt minus 1pt}
\setlength{\emergencystretch}{3em}  % prevent overfull lines
\providecommand{\tightlist}{%
  \setlength{\itemsep}{0pt}\setlength{\parskip}{0pt}}

$if(numbersections)$
  \setcounter{secnumdepth}{$if(secnumdepth)$$secnumdepth$$else$5$endif$}
$else$
  \setcounter{secnumdepth}{0}
$endif$

$if(dir)$
  \ifxetex
  % load bidi as late as possible as it modifies e.g. graphicx
  $if(latex-dir-rtl)$
    \usepackage[RTLdocument]{bidi}
  $else$
    \usepackage{bidi}
  $endif$
  \fi
  \ifnum 0\ifxetex 1\fi\ifluatex 1\fi=0 % if pdftex
    \TeXXeTstate=1
    \newcommand{\RL}[1]{\beginR #1\endR}
    \newcommand{\LR}[1]{\beginL #1\endL}
    \newenvironment{RTL}{\beginR}{\endR}
    \newenvironment{LTR}{\beginL}{\endL}
  \fi
$endif$

$for(header-includes)$
  $header-includes$
$endfor$

%% IQSS overrides
\iqsssectiontitle{Outline}

\AtBeginSection[]{
  \title{\insertsectionhead}
  {
    \definecolor{white}{rgb}{0.776,0.357,0.157}
    \definecolor{iqss@orange}{rgb}{1,1,1}
    \ifnum \insertmainframenumber > \insertframenumber
    \frame{
      \frametitle{\iqsssectiontitleheader}
      \tableofcontents[currentsection]
    }
    \else
    \frame{
      \frametitle{Backup Slides}
      \tableofcontents[sectionstyle=shaded/shaded,subsectionstyle=shaded/shaded/shaded]
    }
    \fi
  }
}

\AtBeginSubsection[]{}

%%


$if(title)$
  \title[$shorttitle$]{$title$}
$endif$

$if(subtitle)$
  \subtitle{$subtitle$}
$endif$

$if(titlegraphic)$
  \titlegraphic{\includegraphics{$titlegraphic$}}
$endif$

$if(author)$
  \author[
    $if(short-author)$
    $for(short-author)$$short-author$$sep$ \and $endfor$
  $else$
    $for(author)$$author$$sep$ \and $endfor$
  $endif$
  ]{$for(author)$$author$$sep$ \and $endfor$}
$endif$

$if(institute)$
  \institute[
  $if(short-institute)$
    $for(short-institute)$$short-institute$$sep$ \and $endfor$
  $endif$
  ]{
  $if(department)$
    $for(department)$$department$$sep$ \and $endfor$ \\
  $endif$
  $for(institute)$$institute$$sep$ \and $endfor$
  $if(email)$
    \\ $for(email)$ \href{mailto:$email$}{\nolinkurl{$email$}}$sep$ \and $endfor$
  $endif$
  }
$endif$

\date[
  $if(short-date)$
    $short-date$
  $else$
    $date$
  $endif$]{
  $if(date)$
    $date$
    $if(license)$
      \\ \vspace{5mm}
    $endif$
  $endif$
  $if(license)$
    {\scriptsize $license$}
  $endif$
}

\begin{document}

% Hide progress bar and footline on titlepage
$if(title)$
  \begin{frame}[plain]
  \titlepage
  \end{frame}
$endif$

$for(include-before)$
  $include-before$
$endfor$

$if(toc)$
  \begin{frame}
  \tableofcontents[hideallsubsections]
  \end{frame}
$endif$

$body$

$if(natbib)$
  $if(bibliography)$
    $if(biblio-title)$
      $if(book-class)$
        \renewcommand\bibname{$biblio-title$}
        $else$
        \renewcommand\refname{$biblio-title$}
      $endif$
    $endif$
    \begin{frame}[allowframebreaks]{$biblio-title$}
    \bibliographytrue
    \bibliography{$for(bibliography)$$bibliography$$sep$,$endfor$}
    \end{frame}
  $endif$
$endif$

$if(biblatex)$
  \begin{frame}[allowframebreaks]{$biblio-title$}
  \bibliographytrue
  \printbibliography[heading=none]
  \end{frame}
$endif$

$for(include-after)$
  $include-after$
$endfor$

\end{document}
