Finally updated the github tutorial

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\usepackage{amsmath}

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\usepackage{graphicx}

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\begin{document}

\begingroup

\Large

\begin{eqnarray*}

  E & = & \frac{1}{2} \sum_i \sum_{j \neq i} V_{ij} \\[15pt]

  V_{ij} & = & {\rm Tap}(r_{ij})\frac{\kappa q_i q_j}{\sqrt[3]{r_{ij}^3+(1/\lambda_{ij})^3}}\\[15pt]

  {\rm Tap}(r_{ij}) & = & 20\left ( \frac{r_{ij}}{R_{cut}} \right )^7 -

                          70\left ( \frac{r_{ij}}{R_{cut}} \right )^6 +

                          84\left ( \frac{r_{ij}}{R_{cut}} \right )^5 -

                          35\left ( \frac{r_{ij}}{R_{cut}} \right )^4 + 1

\end{eqnarray*}

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\end{document}

\documentclass[aps,pr,onecolumn,superscriptaddress,noshowpacs,a4paper,15pt]{revtex4}

\pdfoutput=1

\bibliographystyle{apsrev4}

\usepackage{color}

\usepackage{dcolumn} %Align table columns on decimal point

\usepackage{amssymb}

\usepackage{amsmath}

\usepackage{amsthm}

\usepackage{graphicx}

\usepackage[pdftex]{hyperref}

\hypersetup{colorlinks=true,citecolor=blue,linkcolor=red,urlcolor=blue}

\usepackage[all]{hypcap}

\newcommand{\red}{\color{red}}

\newcommand{\blue}{\color{blue}}

\definecolor{green}{rgb}{0,0.5,0}

\newcommand{\green}{\color{green}}

\newcommand{\white}{\color{white}}

%\newcommand{\cite}[1]{\hspace{-1 ex} % \nocite{#1}\citenum{#1}}

\thickmuskip=0.5\thickmuskip %shorter spaces in math

%

\begin{document}

%

\begingroup

\Large

\begin{eqnarray*}

  E & = & \frac{1}{2} \sum_i \sum_{j \neq i} V_{ij} \\[15pt]

  V_{ij} & = & {\rm Tap}(r_{ij})\left \{ e^{-\alpha (r_{ij}/\beta -1)} 

               \left [ \epsilon + f(\rho_{ij}) + f(\rho_{ji})\right ] - 

                \frac{1}{1+e^{-d\left [ \left ( r_{ij}/\left (s_R \cdot r^{eff} \right ) \right )-1 \right ]}}

                \cdot \frac{C_6}{r^6_{ij}} \right \}\\[15pt]

  \rho_{ij}^2 & = & r_{ij}^2 - ({\bf r}_{ij} \cdot {\bf n}_i)^2 \\[15pt]

  \rho_{ji}^2 & = & r_{ij}^2 - ({\bf r}_{ij} \cdot {\bf n}_j)^2 \\[15pt]

  f(\rho) & = &  C e^{ -( \rho / \delta )^2 }\\[15pt]

  {\rm Tap}(r_{ij}) & = & 20\left ( \frac{r_{ij}}{R_{cut}} \right )^7 -

                          70\left ( \frac{r_{ij}}{R_{cut}} \right )^6 +

                          84\left ( \frac{r_{ij}}{R_{cut}} \right )^5 -

                          35\left ( \frac{r_{ij}}{R_{cut}} \right )^4 + 1

\end{eqnarray*}

\endgroup

%

\end{document}

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