CEED Workshop

This is code and text behind my (Owen Jones's) CEED Workshop site. The material is intended for a workshop called "The Era Of Big Data Hits Conservation" held on 15-19th June 2015 at the ARC Centre for Excellence in Environmental Decisions (CEED). The workshop covers lots of ground, and this is just a small part of it concerning the use of phylogenetic information in conservation.

The site is based on Hadley Wickham's site for his Advanced R Programming book.

The site is built using Jekyll, with a custom plugin to render .rmd files with knitr and pandoc. To create the site, you need:

jekyll and s3_websiter gems: gem install jekyll s3_website
pandoc
knitr: install.packages("knitr")
bookdown: 'install_github("hadley/bookdown")'
Ruby - you probably already have this installed.

.gitignore

Add the following to your .gitignore file.

Temp.html

Temp.Rmd

*.Rproj

_site

##Copying and deploying this site (e.g. to create a similar one)

I assume you are using a Mac with OSX.

Create a new repository, XXX, with a .gitignore file
Create a new branch of XXX called gh-pages (i.e. have two branches named "master" and "gh-pages")
Use the Github app to clone XXX to your computer.
Place the contents of ceed in the XXX directory master branch.
Open Terminal, navigate to your XXX directory, run 'jekyll serve' and watch as directory "_site" is created. It may take a few moments.
Stop the jekyll server (ctrl-c)
Move "_site" to the desktop.
In GitGub app, switch to the gh-pages branch.
Move the contents of "_site" to the XXX directory of the gh-pages branch.
Commit and synchronise to GitGub.
Your site should be visible at http://username.github.io/XXX

jonesor/ceed

CEED Workshop

.gitignore