Please install the following software prior to arriving at the boot camp.
Bash is a commonly-used shell. Using a shell gives you more power to do more tasks more quickly with your computer.
The default shell in all versions of Mac OS X is bash,
so no need to install anything. You access bash from
the Terminal (found
/Applications/Utilities). You may want
to keep Terminal in your dock for this workshop.
The default shell is usually
but if your machine is set up differently
you can run it by opening a terminal and typing
There is no need to install anything.
R is a programming language that specializes in statistical computing. It is a powerful tool for exploratory data analysis. To interact with R, we will use RStudio, an interactive development environment (IDE).
If you already have R installed on your computer, please check the version. You will not be able to download all the packages we will use in the boot camp if you do not have R version > 2.14.1.
When you're writing code, it's nice to have a text editor that is optimized for writing code, with features like automatic color-coding of key words.
Notepad++ is a popular free code editor for Windows.
Kate is one option.
Git is a state-of-the-art version control system. It lets you track who made changes to what when and has options for easily updating a shared or public version of your code on github.com.
Installing Git may require you to first install XCode. This is a very large download (several gigabytes), so please do it before arriving at the bootcamp.
Go to the Xcode website. Get XCode from the App Store making certain to install the command line tools (from the Download preferences pane). Git is included in the command line tools.
If you have Mac OS X 10.6,
first get XCode by going to
the Apple developer site.
You have to sign in with an Apple ID linked to a Developer account.
If you don't have one,
you can register and create one.
Once you log in,
go to page 8 and find "XCode 3.2.6 and iOS SDK 4.3 for Snow Leopard".
Click to open that section,
and then download the
install just git.
If Git is not already available on your machine you can try
to install it via your distro's package manager
Installation issues can and do happen. To ensure that you
can continue to participate in a lesson even if one of your
software programs fails, we provide a Linux virtual machine
that contains all the necessary software
pre-installed. Please install
this virtual machine image.
Load the VM into VirtualBox by doing Import Appliance and loading the