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Making your data available for the Pipeline software can be accomplished in many ways.
Making your data available for the Pipeline software can be accomplished in many ways.
Here is a simple straightforward organization you might want to use.
Here is a simple straightforward organization you might want to use.
'''Create Volumes'''
* Launch your instance and login as explained in the AWS documentation.
* Launch your instance and login as explained in the AWS documentation.
Note: as of this writing if you specify a device as sdf, it will actually show up as /dev/xvdf in the instance.
Note: as of this writing if you specify a device as sdf, it will actually show up as /dev/xvdf in the instance.
This first time you need to prepare the disks by formatting and mounting them:
We suggest you create storage volumes and use each one for each particular kind of data:
* /dev/xvdf for sequence data
* /dev/xvdg for aligner output data
* /dev/xvdh for umake output data
'''Prepare and Attach Volumes'''
This first time you need to prepare the disks by formatting and mounting them.
Realize this step destroys the data on each volume, so be careful which volume you are working on.
<code>
<code>
'''sudo fdisk -l /dev/xdvf''' # Do not continue until this works
Disk /dev/xvdg: 536.9 GB, 536870912000 bytes
Disk /dev/xvdf: 536.9 GB, 536870912000 bytes
[lines deleted]
Disk /dev/xvdf doesn't contain a valid partition table # This is OK
Disk /dev/xvdg doesn't contain a valid partition table
'''sudo mkfs -t ext4 /dev/xvdg'''
# Device exists, good. Format it, destroying any data there, so be sure of the device name.
'''sudo mkfs -t ext4 -L seq /dev/xvdf'''
mke2fs 1.42 (29-Nov-2011)
mke2fs 1.42 (29-Nov-2011)
Filesystem label=
Filesystem label=seq
[lines deleted]
Allocating group tables: done
Allocating group tables: done
Writing inode tables: done
Writing inode tables: done
Writing superblocks and filesystem accounting information: done
Writing superblocks and filesystem accounting information: done
* Repeat these steps for the other volumes
'''sudo fdisk -l /dev/xdvg'''
'''sudo mkfs -t ext4 -L aligner /dev/xvdg'''
'''sudo fdisk -l /dev/xdvh'''
'''sudo mkfs -t ext4 -L umake /dev/xvdh'''
</code>
</code>
