Building gateways for life-science applications using the dynamic application runtime environment (DARE) framework

Authors:
Joohyun Kim;Sharath Maddineni;Shantenu Jha
Affiliations:
Louisiana State University, Baton Rouge, LA;Louisiana State University, Baton Rouge, LA;Rutgers University, Piscataway, NJ and University Baton Rouge, LA
Venue:
Proceedings of the 2011 TeraGrid Conference: Extreme Digital Discovery
Year:
2011

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Abstract

This work is predicated on three important trends: (i) that the importance, impact and percentage of TeraGrid/XD resources assigned to the life sciences is increasing at a rate that is probably greater than other disciplines, (ii) that gateways have proven to be a very effective access mechanism to distributed HPC resources provided by the TeraGrid/XD, and in particular a very successful model for shared/community access models, and (iii) that in spite of the previous two points there are missing capabilities and abstractions that enable the use of the collective capacity of distributed cyberinfrastructure such as TeraGrid/XD, especially those that can be used to develop gateways in an easy, extensible and scalable fashion for both compute and data-intensive applications. We introduce the SAGA-based, Dynamic Application Runtime Environment (DARE) framework from which extensible, versatile and effective gateways that seamlessly utilize scalable infrastructure can be built for a life-science applications. We discuss the architecture of DARE-based gateways, and four specific life-science gateways -- DARE-RFOLD, DARE-DOCK, DARE-HTHP and DARE-NGS, that use the DARE-framework to support a wide-range of life-science capabilities.