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cc2qe committed Mar 14, 2015
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## SpeedSeq AMI
SpeedSeq is available as a public AMI (Amazon Machine Image) on the Amazon Elastic Compute Cloud (EC2).

1. From the EC2 Dashboard, set your region to N. Virginia and click "Launch Instance"
1. Log in to the [Amazon AWS console](http://aws.amazon.com/)

2. From the EC2 Dashboard, set your region to N. Virginia and click "Launch Instance"
![EC2 dashboard](etc/launch-01.png?raw=true "EC2 dashboard")

2. Choose, "Community AMIs" in the sidebar and search for SpeedSeq in the dialog box.
3. Choose, "Community AMIs" in the sidebar and search for SpeedSeq in the dialog box.
![Select SpeedSeq](etc/community_ami-01.png?raw=true "Select SpeedSeq")

3. Select hardware specifications. For deep whole genomes, we recommend c3.8xlarge (32 vCPUs, 60 GB RAM). For testing purposes any machine with 16 GB RAM is sufficient.
4. Select hardware specifications. For deep whole genomes, we recommend c3.8xlarge (32 vCPUs, 60 GB RAM). For testing purposes any machine with 16 GB RAM is sufficient.
![Instance type](etc/instance_type-01.png?raw=true "Instance type")

4. Add storage for the data. Note that the SpeedSeq footprint is ~ 26 GB (including the reference genome and GEMINI).
5. Add storage for the data. Note that the SpeedSeq footprint is ~ 26 GB (including the reference genome and GEMINI).
![Add storage](etc/add_storage-01.png?raw=true "Add storage")

5. Launch the instance and login.
6. Launch the instance and log in.
```
ssh -i mykey.pem [email protected]
```

6. Run the SpeedSeq test script.
7. Run the SpeedSeq test script.
```
./run_speedseq
```
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