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link to cloud lesson for log-in instructions
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ErinBecker committed Nov 21, 2017
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Expand Up @@ -55,49 +55,20 @@ In this lesson you will learn how to use the command line interface to move arou
On a Mac or Linux machine, you can access a shell through a program called Terminal, which is already available
on your computer. If you're using Windows, you'll need to download a separate program to access the shell.


> ## Accessing the shell
> **Mac**
> On Mac the shell is available through Terminal
> Applications -> Utilities -> Terminal
> (Shortcut: Type `command + spacebar` to open Spotlight Search then type terminal and press enter to open the application.)
> You can drag the Terminal application to your Dock for easy access.
>
> **Windows**
> For Windows, we're going to be using gitbash.
> Download and install [gitbash](http://msysgit.github.io).
> Open up the program.
>
> **Linux**
> The shell is available by default when you connect to your AWS instance.
{: .callout}


## Starting with the shell

We will spend most of our time learning about the basics of the shell
by manipulating some experimental data.

Some of the data we're going to be working with is quite large, and
by manipulating some experimental data. Some of the data we're going to be working with is quite large, and
we're also going to be using several bioinformatics packages in later
lessons to work with this data. To avoid having to spend time
downloading the data and downloading and installing all of the software,
we're going to be working with data on a remote server.

You can log-in to the remote server using the information that your instructor has pasted into the Etherpad. First
open your shell (through the Terminal application) and then enter the text starting
with `ssh` from the Etherpad. Each of you will have a different log-in. This will
prevent us from accidentally changing each other's files as we work through the
exercises. For example, you might type:
You can log-in to the remote server using the instructions
[here](http://www.datacarpentry.org/cloud-genomics/02-logging-onto-cloud/#logging-onto-a-cloud-instance).
Your instructor will supply the ip_address and password that you need to login.

~~~
$ ssh [email protected]
~~~
{: .bash}

Make sure you replace `ec2-34-229-196-68.compute-1.amazonaws.com` with your individual log-in.

You will be prompted to enter a password. The password will be provided to you by your instructor.
Each of you will have a different ip_address. This will
prevent us from accidentally changing each other's files as we work through the
exercises. The password will be the same for everyone.

After loging on, you will see a screen showing something like this:

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