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Laboratory of Precision Environmental Health
630 West 168th Street Room 16-416
New York, NY 10032
Amazon Web Services (AWS) Immersion Guide Elastic Compute Cloud Instances (EC2)
High-Performance Computing (EC2 and AMIs): By utilizing the higher network speeds offered through launching Amazon Machine Images (AMIs), the laboratory will utilize Elastic Cloud Computing 2 (EC2) for high performance genomic computing. Many of our large datasets take considerable time to run, and AMIs will help accelerate the speed by which lab members can complete computational jobs.
Workflow*: Prerequisite: A computer, patience, excitement, and MFA/DUO Factor Login.
If you need to enable this, please set itup at at https://cuit.columbia.edu/mfa
*This tutorial is intended to be for Baccarelli Lab computers and is intended for Windows only.
Step One. Login to your AWS Account at https://cuit.columbia.edu/aws
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Step Two. Create an Amazon EC2 Instance by clicking, “Launch Instance”.
Laboratory of Precision Environmental Health
630 West 168th Street Room 16-416
New York, NY 10032
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Step Three. Ensure you select the timezone of US East (N. Virginia).
Step Four. Choose an Amazon Machine Image (AMI). For
lab computers, it is advisable to
Laboratory of Precision Environmental Health
630 West 168th Street Room 16-416
New York, NY 10032
choose a Windows 2012 R2 Base or 2016 Server. You can also call up custom AMIs in this
step (My AMIs).
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Step Five. Choose an Instance Type. Instances are virtual servers that can run applications.
They have varying combinations of CPU, memory, storage, and networking capacity. Learn
more about the best instance type for your computing requirements.
Next, Configure instance details. It is advisable to check off “protect against accidental termination”.
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Laboratory of Precision Environmental Health
630 West 168th Street Room 16-416
New York, NY 10032
Step Seven. On the bottom right hand on the screen, click on “add storage”.
Next, add a new volume of storage (GB) to suit your requirements. Under “Encrypted”,
select the default option.
Laboratory of Precision Environmental Health
630 West 168th Street Room 16-416
New York, NY 10032
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Step Ten. Add tags. It will help to identify which project this belongs to/cost.
This helps to identify a machine
Naming Convention:
Key: user
Value: uni
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Step Eleven. On the bottom right hand on the screen, click on “Configure Security Group”.
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Laboratory of Precision Environmental Health
630 West 168th Street Room 16-416
New York, NY 10032
Next, configure your security group. Under “source”, change this to your personal security
group using the drop-down menu.
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Step Twelve. On the bottom right hand on the screen, click on “Review and Launch”.
Next, after confirming your details are correct, launch your instance:
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Step Thirteen. Create a new key pair.
Select “create a new key pair” from the
drop-down menu and give it a unique
name.
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Laboratory of Precision Environmental Health
630 West 168th Street Room 16-416
New York, NY 10032
Next, download your key pair.
And launch your instance.
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Your instance should only take about 1 minute to launch. Click on “view instances” to see
your launch status.
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Once your instance is running, click connect.
Laboratory of Precision Environmental Health
630 West 168th Street Room 16-416
New York, NY 10032
Click on “get password.” This
is the Key Pair you just created
and downloaded.
Choose the key pair you downloaded by utilizing “choose file”.
Next, click on “Decrypt Password”. Copy decrypted
password to clipboard, and save in an empty notepad
for future use.
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Laboratory of Precision Environmental Health
630 West 168th Street Room 16-416
New York, NY 10032
&
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Step Fourteen. Connect to your AMI. On a Windows Machine, you can launch your
“Remote Desktop Connection (RDC)” from the Start Menu by typing “rdc” in the Search bar.
Laboratory of Precision Environmental Health
630 West 168th Street Room 16-416
New York, NY 10032
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Remote Desktop Connection tool will launch. Click, “Show Options”.
Change the Connecting Computer to the IPv4 Public IP, retrievable here:
Laboratory of Precision Environmental Health
630 West 168th Street Room 16-416
New York, NY 10032
Changing the connecting computer field.
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After clicking, “Connect”, enter the decrypted
password you saved into the Password field.
Laboratory of Precision Environmental Health
630 West 168th Street Room 16-416
New York, NY 10032
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Click “Yes”.
Advanced:
If you are launching a LINUX AMI, ensure you have configured the applicable ports under
your security group to access the appropriate servers.
More information: https://aws.amazon.com/blogs/big-data/running-r-on-aws/
Attach an EBS-volume snapshot to your EC2 Instance
After your volume has been created from a snapshot, you can attach it to an instance. This
speeds up your configuration of a unique environment after launch. Please note that taking
an AMI snapshot during a running instance can have implications for the status of that
instance. When in doubt, it is safest to provide instance backup using EBS.
Thank You!
More Tutorials Available At: - https://aws.amazon.com/training/self-paced-labs/
Laboratory of Precision Environmental Health
630 West 168th Street Room 16-416
New York, NY 10032
Prepared by Julia Knox Baccarelli Lab AWS Immersion Day 1/28/2019