Software

R & RStudio

To participant in this workshop, you will need a laptop with the most current version of R, and, preferably, RStudio loaded on your computer. You will also need the bash shell installed

If you already have these installed on your laptop, please be sure that you are running the most current version of RStudio, R and all packages that we'll be using in the workshop (listed below).

For details on installing RStudio in Mac, PC, or Linux operating systems, please see the Additional Set Up Instructions section at the bottom of this page.

Bash shell

You will need bash shell to complete this workshop. If you use a Mac, this is the default shell ("Terminal") on your computer. If you use a PC or Linux operating system you may need to install it. For complete installation instructions, please see the Additional Set Up Instructions section below.

Download Data

To be prepared for this workshop, please download & unzip the following files in advance:

[[nid:6355]] [[nid:6345]] [[nid:6351]]

Optional: you can download the global boundary files below if you wish to follow along with the data management demonstration on Coordinate Reference Systems.

• Download "land" - Natural Earth Global Continent Boundary Layer

• Download all Graticules - Natural Earth Global Graticules Layer

So that your code will mirror that of the instructors, your R working directory should be set to a parent directory data that contains all of the above data files (unzipped). For complete directions, please see the Additional Set Up Instructions section below.

Install R Packages

You can chose to install each library individually if you already have some installed.

• raster: install.packages("raster")
• rgdal (windows): install.packages("rgdal")
• rgdal (mac): install.packages("rgdal",configure.args="--with-proj-include=/Library/Frameworks/PROJ.framework/unix/include --with-gdal-config=/Library/Frameworks/GDAL.framework/unix/bin/gdal-config --with-proj-lib=/Library/Frameworks/PROJ.framework/unix/lib")
• rasterVis: install.packages("rasterVis")
• ggplot2: install.packages("ggplot2")
• sp: install.packages("sp")
• rgeos install.packages("rgeos")

Optional installation If you want to work through the metadata lesson which includes a section on the Ecological Metadata Language (EML), please install the following:

• devtools: install.packages("devtools")
• eml install_github("ropensci/EML", build=FALSE, dependencies=c("DEPENDS", "IMPORTS")) NOTE: You have to run the devtools library library(devtools) first, and then install_github will work the EML package is under development which is why the install occurs from GitHub and not can!

Update R Packages

In RStudio, you can go to Tools --> Check for package updates to update already installed libraries on your computer! Or, you can use update.packages() to update all packages that are installed in R automatically.