TPP TWA:Tutorial
From SPCTools
Contents |
Introduction
The TPP Web-launcher for Amazon Web Services (TWA) is a cloud computing web-based application for launching your own instance of TPP in the cloud. Based on Amazon Web Services, it simplifies the process of starting an Amazon Elastic Compute Cloud (EC2) instance with TPP already installed and ready to use.
About Tutorial
This tutorial is written for anyone interested in trying a completely cloud based instance of the Trans-Proteomics Pipeline on Amazon Web Services. It will walk the user through the steps of setting up a Amazon Web Services account and then using TWA to launch a compute node on the cloud running the TPP. Users will then use TPP's Petunia web interface to submit multiple searches on AWS and view the results. Readers may find it easier to follow the tutorial if they are already familiar with the TPP's web interface and usage.
Requirements
All that is required to execute this tutorial is a Amazon Web Services account, a Internet connection, and a current version of either the Firefox or Internet Explorer web browser. Older browser versions or vendors of browsers may not support all functionality.
Tutorial
Readers should be aware that executing this tutorial will incur some AWS charges. The exact amount of these charges will vary based on a number of factors but should be on the order of $1-$4 USD.
Step 1: Starting TWA
Launch the TWA application by navigating with your web browser to http://tools.proteomecenter.org/twa. The TWA web-based application will appear as a toolbar across the top of the main page with details about the TWA application. Within this toolbar are two fields for entering a Access Key ID and the Secret Access Key, more on these in the next section. Next in the toolbar are two drop down menus, the first labeled "Tools" and the second labeled "AWS Shortcuts". The Tools submenu provides control over options along with several useful operations and is only enabled once you've successfully authenticated your access and secret keys. The AWS Shortcuts menu provides shortcut links to web forms at Amazon Web Services commonly used by TPP cloud services. The last element in the toolbar is a control button that allows you to either start or stop a EC2 instance. The button will only be enabled when successfully authenticated and its label will reflect the current state (start or stop instance).
Step 2: Getting Your Amazon credentials
In order for the TPP to have access to Amazon Web Services you must provide your AWS credentials confirm that you are who you say you are and that you do have permissions to do what you are trying to do. These credentials are known as Amazon's access and secret key. These keys are used to make secure REST or Query protocol requests to any AWS service API.
You can create new keys using the Amazon Security Credentials page. Your access keys are displayed under the Access Keys section in the Credentials Section of the page. Secret keys are now no longer displayed. If you've previously created a access/secret key pair and have forgotten what the secret key is you will need to generate a new key pair. For more information about setting up your AWS credentials please see Where's my secret access key?
Step 3: Signing into TWA
Step 4: Launch a EC2 instance
Step 5: Search data with X!Tandem
Step 7: Cleanup
After you are satisfied with your results its important to cleanup your files on Amazon to avoid any additional charges as the original input data and results remain in Amazon S3 until you perform this last step. Using Petunia navigate to Account > Amazon Cloud and click on the button "Shutdown all instances and delete all data". This will ensure that any remaining instances are terminated and all data stored in Amazon S3 is removed. Note at any time you can click on this button to stop Amazon processing and remove your data.
Next Steps
For further information on using Amazon cloud services see the other tutorials and documentation on this website or post your questions to the TPP mailing list at spctools-discuss discussion group.
