Browsing by Author "Repasky, Richard"

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Global Analysis of Arthropod Evolution
(2003-11-19) Keller, Rainer; Hess, Matthias; Repasky, Richard; Colbourne, John; Stewart, Craig A.; Hart, David; Steinbachs, Jennifer; Wössner, Uwe; Berry, Donald K.; Müller, Matthias; Li, Huian
Global Analysis of Arthropod Evolution
(2004-03-09) Stewart, Craig A.; Repasky, Richard; Colbourne, John; Hart, David; Berry, Donald K.; Sheppard, Ray; Wernert, Eric; Papakhian, Mary; Huffman, John N.
Global Analysis of Arthropod Evolution – a successful grid project
(2004-04-26) Stewart, Craig A.; Keller, Rainer; Hess, Matthias; Wössner, Uwe; Aumüller, Martin; Müller, Matthias; Repasky, Richard; Hart, David; Li, Huian; Berry, Donald K.
A Global Grid for Analysis of Arthropod Evolution
(2004-11-08) Stewart, Craig A.; Keller, Rainer; Repasky, Richard; Hess, Matthias; Hart, David; Müller, Matthias; Sheppard, Ray; Wössner, Uwe; Aumüller, Martin; Li, Huian; Berry, Donald K.; Colbourne, John
High Performance Computing for University Medical Research: A Successful Implementation
(2007-04-24) Stewart, Craig A.; Repasky, Richard
This presentation gives an overview of high performance computing for bioinformatics and biomedical research at IU.
INGEN's advanced IT facilities: The least you need to know
(2002) Cruise, Robert; Hart, David; Papakhian, Mary; Repasky, Richard; Samuel, John; Shankar, Anurag; Stewart, Craig A.; Wernert, Eric
Open source tools for computational biology
(2004-11-07) Stewart, Craig A.; Repasky, Richard; Arenson, Andrew
Survey of TeraGrid Job Distribution: Toward Specialized Serial Machines as TeraGrid Resources
(TeraGrid, 2007) Gopu, Arvind; Repasky, Richard; McCaulay, Scott
As we proceed towards the age of petascale computing, it is important to be aware that even today more than half of national cyberinfrastructure users are serial users who run single processor code; more over, coarse-grained parallel application do not necessarily benefit from a high-speed low-latency interconnect. While a majority of compute resources on the TeraGrid today are massive parallel machines with high-speed low-latency interconnects like Myrinet or Infiniband, optimized to run large fine-grained parallel applications that use hundreds of processors/cores in parallel, usage patterns indicate that there is still considerable demand that could be just as effectively met by large computational resources with no special high-speed or low-latency interconnects. Research allocations involving large serial applications or coarse-grained parallel applications could be allocated to these machines, thus possibly leading to decreased wait times for massive parallel and large serial jobs. This change in focus would also lower the financial barrier for potential new resource providers to the national cyberinfrastructure, by allowing them to reallocate funds from the interconnect to additional computational capacity.
Technical Report: Distributed Parallel Computing Using Windows Desktop Systems
(2003) Hart, David; Grover, Douglas; Liggett, Matt; Repasky, Richard; Shields, Corey; Simms, Stephen; Sweeny, Adam; Wang, Peng
Like many large institutions, Indiana University has thousands of desktop computers devoted primarily to running office productivity applications on the Windows operating system, tasks which are necessary but that do not use the computers’ full capacity. This is a resource worth pursuing. However, the individual desktop systems do not offer enough processing power for a long enough period of time to complete large scientific computing applications. Some form of distributed, parallel programming is required, to make them worth the chase. They must be instantly available to their primary users, so they are available only intermittently. This has been a serious stumbling block: currently available communications libraries for distributed computing do not support such a dynamic communications world well. This paper introduces Simple Message Broker Library (SMBL), which provides the flexibility needed to take advantage of such ephemeral resources.
University Information Technology Services' Advanced IT Facilities: The least every researcher needs to know
(2003-02) Cruise, Robert; Hart, David; Papakhian, Mary; Repasky, Richard; Samuel, John; Shankar, Anurag; Stewart, Craig A.; Wernert, Eric
This document is designed to be read as a printed document, and designed to permit anyone at all familiar with computers and the Internet to start at the beginning, get a general overview of UITS' advanced IT facilities and what they offer, and then read the detailed portions of the document that are of interest. In many cases, examples are provided, as well as directions on how to download sample files. And in some cases there is information that one is best off really not learning – for example the process of logging into IU's IBM supercomputer the first time involves setup steps that should be followed, keystroke by keystroke, from the directions presented herein, and then promptly forgotten. This document is intended to be a starting point, not a comprehensive guide. As such it should get any reader off to a good start, but then point the reader in the direction of consulting staff and online resources that will permit the reader to get additional help and information as needed. Most of all, this document is provided for the convenience of researchers, who may peruse this information at their leisure. Our hope and expectation is that consultants in UITS will provide extensive help and programming assistance to IU researchers who wish to make use of these excellent IT facilities.