Cloud Computing for the Microbiome Workshop Notes

Comprehensive documentation can be found at CloudMan.

Start at Galaxy Cloud Launch Enter AWS Credentials (AWS Key ID and Secret)

Cluster Name - A name for your cluster.
Password - A password for the administrative functions of your cluster.
Key ID - AWS Key ID (The short part)
Secret Key - AWS Secret Key (The long part)
Instance Type - The type of EC2 instance you would like. m1.large or higher recommended.

Navigate to the URL presented on the confirmation page to configure your cluster

To create an exact copy of the instance from our workshop demo, click “advanced options”, and enter the Instance Share String below
OR, to create a regular Galaxy cluster, just enter how much space(in gigabytes) you’d like to have to work with.

Instance Share String: cm-e49d0cbc21a77988d38b0d13890eee8f/shared/2012-04-03--19-54/

At this point, just wait a few seconds and you’re ready to go when the “Access Galaxy” button lights up.

Additional Links

Documentation covering Galaxy Data Libraries can be found at Admin/DataLibraries/Libraries

Specific documentation covering options for uploading to be libraries can be found at Admin/DataLibraries/UploadingLibraryFiles

This currently requires creating a volume from the AWS Console and mounting via the instance’s shell (via ssh).

From AWS, note the Availability Zone of your EC2 instance, then click Elastic Block Store -> Volumes -> Create Volume, then enter the following parameters:
- Size: 1 TiB
- Availability Zone: Same as your EC2 Instance
- Snapshot: snap-17f4c06d
With the new volume checked, click More… -> Attach Volume, select your instance and set the device (the default device name filled in to the dialog once you select your instance is acceptable).
Log in to your instance using SSH: ssh -i /path/to/your/ecs_ssh_private_key ubuntu@ec2-1-2-3-4.compute-1.amazonaws.com
Become root: sudo -i
Mount the volume: mkdir /mnt/workshopData; mnt /dev/sdf /mnt/workshopData
From the Galaxy Admin interface (if you have not yet configured an account to be a Galaxy administrator, you can do so at http://ec2-1-2-3-4.compute-1.amazonaws.com/cloud/root/admin ), click Manage data libraries -> Create new data library.
Enter a name and optional description/synopsis for the library, and click Create.
In your new library, click Add datasets.
From Upload option, select Upload files from filesystem paths.
In Paths to upload, enter the path(s) (/mnt/workshopData/...) to files or directories that you would like to import.
Click Upload to library.