customized cloud platform for computing on your terms ! nirav merchant ([email protected])
TRANSCRIPT
What is cloud computing ?
http://geekandpoke.typepad.com/geekandpoke/2009/03/let-the-clouds-make-your-life-easier.html
Atmosphere: motivation• Standalone GUI-based applications are frequently
required for analysis • GUI apps not easily to transform into web apps• Need to handle complex software dependencies
(e.g specific bioperl version and R modules)• Users needing full control of their software stack
(occasional sudo access)• Need to share desktop/applications for
collaborative analysis (remote collaborators)• Availability of Next Gen map-reduce based
algorithms (currently we have limited support)
Challenges of existing platforms
• Amazon Web Services (AWS)http://aws.amazon.com/
• Flexible and scalable • High level of expertise required for
configurations• Fairly challenging for biologists to master all
steps• Limited lifecycle management (cost, time)
Steps to get started !
What is Atmosphere ?• Self-service cloud infrastructure • Designed to make underlying cloud
infrastructure easy to use by novice user• Built on open source Eucalyptus • Fully integrated into iPlant authentication and
storage and HPC capabilities• Enables users to build custom
images/appliances and share with community• Cross-platform desktop access to GUI
applications in the cloud (using VNC)• Provide easy web based access to resources
Who is this tutorial designed for ?
• Users wanting to launch configured images in atmosphere (like app store™)
• Developers for application distribution• Prototyping/Testing new software/modules• Tailored software training setups (custom
workshops/laboratory courses etc)• Extend compute capabilities of existing
applications i.e. utilize iPlant API
• API-compatible implementation of Amazon EC2/S3 interfaces
• Virtualize the execution environment for applications and services
• Up to 12 core / 48 GB instances• Access to Cloud Storage + EBS• Run servers, CloudBurst desktop use
cases. Big data and the desktop are co-local again!
>60 hosted applications in Atmosphere today, including users from USDA, Forest Service, database providers, etc.
(30 more for postdocs and grad students for training classes)
The iPlant CollaborativeProject Atmosphere™: Custom Cloud Computing
Atmosphere: Collaboration
iPlant Data Store
Lifecycle
How to Connect
Different Ways to Log in to VMs
Hands on exercise• Launching a instance (one per team)• Connecting to it (vnc and ssh) using the web browser
and vnc client software• Bringing data from iDS to Atmosphere (use idrop or
icommands)• Launching a application• Installing a new application (optional)• Saving data back to iDS• Collaborating with other users (sharing your session)• Terminating the instance when you are done
Exercise (cont.)• Atmosphere manual is at: https://pods.iplantcollaborative.org/wiki/x/Iaxm• To get started point your browser to
https://atmo-beta.iplantcollaborative.org/• Login with your iPlant credentials• Please do not launch an instance until your instructor has directed you to
do so.It is ideal if 4 or 5 users form a team and launch a single instance to limit the load on the system
• Once launched, check email for availability of your instance (usually 10 to 15 min) or you can check the web interface
• Once you instance is ready you use the IP address and connect to it, and invite others to connect to it and collaborate with them with a shared screen
• For todays session we will use the “NGS Viewers” application
Uses of Atmosphere • Workshops:– Frontiers and Techniques in Plant Sciences
CSHL 2011– Genotyping by Sequencing
Cornell Computational Biology • Graduate course work:– BCB 660 Prof. Volker Brendel and Amy Toth
Fall 2011, Iowa State University• Popular community contributed images:– PhytoMorph (Nate Miller, U. Wisconsin)– Twig2Genome (Haibao Tang, JCVI)– Julin Maloof, UC Davis*