EVOLUTION-MANAGER

Edit File: pandoc.Rmd

---
title: "Install Pandoc"
output: rmarkdown::html_vignette
vignette: >
  %\VignetteIndexEntry{Install Pandoc}
  %\VignetteEngine{knitr::rmarkdown}
  %\VignetteEncoding{UTF-8}
---

```{r, include = FALSE}
knitr::opts_chunk$set(
  collapse = TRUE,
  comment = "#>"
)
```

A recent version of Pandoc (>= 1.12.3) is required to use the rmarkdown package. RStudio also automatically includes this so you do not need to download Pandoc if you plan to use rmarkdown from the [RStudio IDE](http://www.rstudio.com/ide/download/preview).

If not using the RStudio IDE, you'll need to install Pandoc for your platform.

## Windows and Mac OS X

The [pandoc installation](http://johnmacfarlane.net/pandoc/installing.html) page includes easy to use installers for Windows and Mac OS X.

## Linux

The version of pandoc included in the standard repositories is not recent enough for use with the **rmarkdown** package. You can install a more recent version of pandoc by installing the Haskell Platform and then following these instructions for [building pandoc from source](http://johnmacfarlane.net/pandoc/installing.html#all-platforms).

This method installs a large number of Haskell dependencies so might not be desirable. You can also obtain a standalone version of pandoc without the dependencies as follows:

### Older Systems (RHEL 5)

For older Linux systems you can obtain a standalone version of pandoc v1.13.1 (with no Haskell dependencies) from <https://copr.fedoraproject.org/coprs/petersen/pandoc-el5/> as follows:

$ sudo wget -P /etc/yum.repos.d/ https://copr.fedoraproject.org/coprs/petersen/pandoc-el5/repo/epel-5/petersen-pandoc-el5-epel-5.repo
    $ yum install pandoc pandoc-citeproc

### Newer Systems (Debian/Ubuntu/Fedora/RHEL6+)

For newer Linux systems you can make a standalone version of pandoc v1.12.3 available to the system by soft-linking the binaries included with RStudio:

$ sudo ln -s /usr/lib/rstudio/bin/pandoc/pandoc /usr/local/bin
    $ sudo ln -s /usr/lib/rstudio/bin/pandoc/pandoc-citeproc /usr/local/bin

If you are running RStudio Server the commands would be:

$ sudo ln -s /usr/lib/rstudio-server/bin/pandoc/pandoc /usr/local/bin
    $ sudo ln -s /usr/lib/rstudio-server/bin/pandoc/pandoc-citeproc /usr/local/bin

If you aren't running RStudio at all you can simply copy the binaries out of the RStudio `bin/pandoc` directory and locate them within `/usr/local/bin` on your target system.