Tool access

Signing up for your AWS account

1. Go to http://aws.amazon.com, and then click Sign Up.
2. Follow the on-screen instructions.
3. Additional information on getting started with AWS can be found at http://aws.amazon.com/getting-started/

Note: Part of the sign-up procedure involves receiving a phone call and entering a PIN using the phone keypad.

Creating your AWS Key Pair

1. Open the Amazon EC2 console.
2. From the navigation bar, select US East (N. Virginia) Region for the key pair.
3. Click Key Pairs in the navigation pane.
4. Enter a name for the new key pair in the Key pair name field of the Create Key Pair dialog box, and then click Create.
5. The private key file is automatically downloaded by your browser. The base file name is the name you specified as the name of your key pair, and the file name extension is .pem. Save the private key file in a safe place. (ie. ~/.ssh/my-key-pair.pem)

• If you are on a Mac or Linux system and do not have a .ssh directory, run the command below from a terminal.

mkdir ~/.ssh/

• If you are on a Windows system and do not have a .ssh directory, run the command below from PowerShell or CMD.

mkdir .ssh

to be completed...

Launch server from Amazon Machine Image (AMI)

1. From the AWS console navigate to Services --> EC2 and click on Launch Instance
2. You should now be in the Choose AMI menu. Click on Community AMIs and search for PLACEHOLDER click Select
3. Select a size for the instance

Access to the tools during hackathon

to be completed...

• The IT infrastructure necessary to develop and test code quickly (hack without looking back)

The following items will be documented very shortly
(Note that order may change:)

• Using the NMDP-developed AMI
• Installing the software on your own system
• finding the data on the AMI
• logging into the NMDP-provided instance
• requesting an account on the NMDP-provided instance
• tools included on the AMI, and NMDP-provided instance

Tools included on the AMI (and on the NMDP-provided instance)

• standard Linux system tools, including wget, curl, emacs, vim
• source control manipulation tools: git, subversion
• java development tools: openjdk 1.7, maven
• pipeline related tools: nmdp-ngs-tools, SSAKE, bwa, samtools, gl-tools, blat, sra-toolkit
• misc tools: groovy