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* GotCloud software and reference files
* GotCloud software and reference files
* Your sequence data
* Your sequence data
* Output of the aligner
* Output of the aligner
* Output of umake
* Output of umake
The first of these is a small volume based on a snapshot containing the GotCloud files you will need.
The '''first of these''' is a small volume based on a snapshot containing the GotCloud files you will need.
We provide an AWS snapshot of a small volume which contains the aligner and umake software and reference files.
We provide an AWS snapshot of a small volume which contains the aligner and umake software and reference files.
Create an EBS volume based on our snapshot and then mount that volume on your instance.
Create an EBS volume based on our snapshot and then mount that volume on your instance.
In the EC2 Management Console under ELASTIC BLOCK STORE, select Volumes -> Create Volume.
In the prompt supply the size and Snapshot (based on the table below).
You may take the defaults for the Volume Type and IOPS.
<code>
Availability Zone Snapshot Size
us-west-2a snap-1a13913c 40GB
</code>
and create the volume. This will create a device which you need to mount in your instance.
This will create a device like /dev/sdf, which unfortunately actually translates to
the device /dev/xvdf in your Linux instance. Once the volume is ready, mount it
by logging into your instance with ssh and issuing the command:
<code>
sudo mkdir -p /gotcloud
sudo mount /dev/xvdf /gotcloud # or whatever device yours is
df -h
</code>
This will make the GotCloud software available under the path /gotcloud/bin etc.
Each time your instance is started, you'll need to mount this volume.
You may want to create a small shell script to mount the device.
The next storage volumes will varying based on what you data you have.
The sequence data might already be in some volume, provided someone else.
You'll have to mount volume too.
You should expect the three data volumes will all need to be the same size. That is, if your sequence data is 300GB, then you'll need an additional 300GB for the aligner output and then another 300GB of storage for the umake output. We suggest you consider making each set of data be separate volumes.
You may also find that your sequence data is too large to be easily handled in one go,
You may also find that your sequence data is too large to be easily handled in one go,
so you might choose to only use the aligner/umake on part of your sequence data, capture the files
so you might choose to only use the aligner/umake on part of your sequence data, capture the files
of interest from umake, and then go back and rerun the software with the next bit of sequence data.
of interest from umake, and then go back and rerun the software with the next bit of sequence data.
