evolution.sty

\ProvidesPackage{evolution}     % must match the name of this file

%--------------------------------------------------
% Style for Evolution
%--------------------------------------------------

% Margins
\usepackage[margin=1in]{geometry}

% Font
\usepackage{mathptmx} % Times font (including math)
\usepackage[T1]{fontenc}
% (font size is set with documentclass)

% Section headings
\setcounter{secnumdepth}{0} % do not number sections
\usepackage[compact]{titlesec}
\titleformat*{\section}{\center\bfseries}      % also, use titlecase
\titleformat*{\subsection}{\bfseries\itshape}  % also, use sentencecase
\titleformat*{\subsubsection}{\itshape}

% Line spacing
\usepackage{setspace}
\newcommand{\stretchby}{1.5}
\setstretch{\stretchby}

% Line numbering
%   put after amsmath, for better numbering
%   ? though still need to wrap subequations in begin/end{linenomath*}
\usepackage[mathlines]{lineno}
\modulolinenumbers[5]
% \linenumbers % put this after the titlepage

% Paragraphs
\setlength{\parindent}{0.5in}
\setlength{\parskip}{0pt}

% Figures and Tables

\usepackage{graphicx}

\usepackage{booktabs}
\setlength\heavyrulewidth{0.15em}
\cmidrulekern 0.2em

\usepackage{newfloat}
\DeclareFloatingEnvironment[name=Figure]{suppfigure}
\DeclareFloatingEnvironment[name=Table]{supptable}
\renewcommand\thesuppfigure{S\arabic{suppfigure}}
\renewcommand\thesupptable{S\arabic{supptable}}

\usepackage{caption}
\captionsetup{font={stretch=\stretchby}}
% \usepackage{subcaption}
% push figures to end
\usepackage[nolists,nomarkers]{endfloat}
% \renewcommand{\efloatseparator}{\mbox{}} % don't clearpage after each float
\DeclareDelayedFloat{suppfigure}{Supplemental Figures}
\DeclareDelayedFloat{supptable}{Supplemental Tables}

% \usepackage{sidecap}
% \usepackage{array}
% \usepackage{threeparttable}

% Math
\usepackage{bm}
\newcommand{\myvec}[1]{\ensuremath{\bm{\mathsf{#1}}}}
\usepackage{amsmath}

% Citations
\usepackage[authoryear,sectionbib]{natbib}
\bibpunct{(}{)}{;}{a}{}{,}  % no comma between author and year
\renewcommand{\bibsection}{\section{Literature Cited}}
\setlength{\bibsep}{1pt}

% Cross-refs
\usepackage[hidelinks, pagebackref=false, colorlinks=true, linkcolor=blue, citecolor=blue]{hyperref} % needs to be loaded before cleveref
\usepackage[capitalize,sort&compress]{cleveref}
\newcommand{\crefrangeconjunction}{--}
\crefname{figure}{Fig.}{Figs.}
\crefname{table}{Table}{Tables}
\crefname{suppfigure}{Fig.}{Figs.}
\crefname{supptable}{Table}{Tables}

% Used on the title page
\usepackage{endnotes}
\renewcommand{\enoteheading}{}
\renewcommand{\enotesize}{\normalsize}
\renewcommand\enoteformat{\rightskip=0pt \leftskip=0pt \parindent=0em \leavevmode\makeenmark\raggedright}

% Formatting of i.e. and e.g. (following space, possible comma, possible italics)
\usepackage{xspace}
\newcommand*{\ie}{i.e.,\xspace}
\newcommand*{\eg}{e.g.,\xspace}
\newcommand*{\vs}{vs.\xspace}

% not sure how much this really helps
\setlength{\emergencystretch}{3em} % prevent overfull lines
\widowpenalty=1000 % avoid orphan lines?
\clubpenalty=1000