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Early evaluation of the Cray XT3

J.S. Vetter, S.R. Alam, T.H. Dunigan, M.R. Fahey, P.C. Roth, P.H. Worley
2006 Proceedings 20th IEEE International Parallel & Distributed Processing Symposium  
Oak Ridge National Laboratory recently received delivery of a 5,294 processor Cray XT3. The XT3 is Cray's third-generation massively parallel processing system.  ...  Cray-provided compiler wrappers ease the development of parallel applications for the XT3 by automatically including compiler and linker switches needed to use the XT3's communication libraries.  ...  to their SGI Altix, and the ORNL Center for Computational Sciences (CCS) for access to the Cray X1, Cray X1E, Cray XD1, Cray XT3, IBM p690 cluster, and SGI Altix.  ... 
doi:10.1109/ipdps.2006.1639300 dblp:conf/ipps/VetterADFRW06 fatcat:b32sr54yzfhlvozpgticr5owku

Performance characterization of molecular dynamics techniques for biomolecular simulations

Sadaf R. Alam, Jeffrey S. Vetter, Pratul K. Agarwal, Al Geist
2006 Proceedings of the eleventh ACM SIGPLAN symposium on Principles and practice of parallel programming - PPoPP '06  
Supercomputers, such as IBM Blue Gene/L and Cray XT3, will soon make tens to hundreds of teraFLOP/s of computing power available by utilizing thousands of processors.  ...  and also by the implementation of the algorithms.  ...  This research used resources of the Center for Computational Sciences at Oak Ridge National Laboratory, which is supported by the Office of Science of the U.S. Department of Energy under Contract No.  ... 
doi:10.1145/1122971.1122983 dblp:conf/ppopp/AlamVAG06 fatcat:gb65colchrfmbiv4robentasdm

QUANTIFYING NETWORK CONTENTION ON LARGE PARALLEL MACHINES

ABHINAV BHATELÉ, LAXMIKANT V. KALÉ
2009 Parallel Processing Letters  
Results are shown for three parallel machines -ANL's IBM Blue Gene/P (Surveyor), ORNL's Cray XT4 (Jaguar) and PSC's Cray XT3 (BigBen).  ...  Several MPI benchmarks are used to evaluate the effect of hops (links) traversed by messages, on their latencies.  ...  We also used running time on Jaguar which is a resource of the National Center for Computational Sciences at Oak Ridge National Laboratory, and is supported by the Office of Science of the Department of  ... 
doi:10.1142/s0129626409000419 fatcat:avawuygy35dcnlccpqxanjc624

Impact of multicores on large-scale molecular dynamics simulations

Sadaf R. Alam, Pratul K. Agarwal, Scott S. Hampton, Hong Ong, Jeffrey S. Vetter
2008 Proceedings, International Parallel and Distributed Processing Symposium (IPDPS)  
Processing nodes of the Cray XT and IBM Blue Gene Massively Parallel Processing (MPP) systems are composed of multiple execution units, sharing memory and network subsystems.  ...  In order to understand and avoid such situations, we investigate the impact of resource contention on three scalable molecular dynamics suites: AMBER (PMEMD module), LAMMPS, and NAMD.  ...  The authors would like to thank National Center for Computational Sciences (NCCS) for access to Cray XT3 and support (INCITE award).  ... 
doi:10.1109/ipdps.2008.4536181 dblp:conf/ipps/AlamAHOV08 fatcat:pvorbxv2cjcytdsri6zthzk5qi

On the Path to Enable Multi-scale Biomolecular Simulations on PetaFLOPS Supercomputer with Multi-core Processors

Sadaf R. Alam, Pratul K. Agarwal
2007 2007 IEEE International Parallel and Distributed Processing Symposium  
In this preliminary study, we attempt to characterize computation, communication and memory efficiencies of bio-molecular simulations on a Cray XT3 system, which has recently been upgraded to dual-core  ...  In particular, with the introduction of multi-core processing technologies in systems with tens of thousands of processing cores, it is unclear whether the existing biomolecular simulation frameworks will  ...  Acknowledgements The authors would like to thank National Center for Computational Sciences (NCCS) for access to Cray XT3 and support (INCITE award).  ... 
doi:10.1109/ipdps.2007.370443 dblp:conf/ipps/AlamA07 fatcat:uvkoel2jkvf6pfmr73pjxagwqe

To upgrade or not to upgrade? Catamount vs. Cray Linux Environment

S.D. Hammond, G.R. Mudalige, J.A. Smith, J.A. Davis, S.A. Jarvis, J. Holt, I. Miller, J.A. Herdman, A. Vadgama
2010 2010 IEEE International Symposium on Parallel & Distributed Processing, Workshops and Phd Forum (IPDPSW)  
A case study is presented that assesses the potential performance of a particle transport code on AWE's Cray XT3 8,000core supercomputer running images of the Catamount and the Cray Linux Environment (  ...  This paper documents the development and application of methods to assess the potential performance of selecting one hardware, operating system (OS) and software stack combination against another.  ...  Acknowledgements Access to Chimaera and the AWE XT3 and Pilot machines was supported by the United Kingdom Atomic Weapons Establishment (AWE) under grants CDK0660 (The Production of Predictive Models for  ... 
doi:10.1109/ipdpsw.2010.5470885 dblp:conf/ipps/HammondMSDJHMHV10 fatcat:vfa5kkiiozep5dm3q6qtudyg2m

Application Scalability and Performance on Multicore Architectures

T. Simon, S. Cable, M. Mahmoodi
2007 2007 DoD High Performance Computing Modernization Program Users Group Conference  
Cray XT3 extensions.  ...  System Overview The US Army Engineer Research and Development The current ERDC Cray XT3 (Sapphire) contains Center Major Shared Resource Center has recently 4,160 processing nodes with each node running  ...  Benchmarks Commodity multicore chips have become an integral Five codes were used in this study to evaluate the part of high performance computing architectures [ 11 . This performance of the XT3.  ... 
doi:10.1109/hpcmp-ugc.2007.10 fatcat:xysbc2wlbfdf3e7sbdy5owkutq

Implementation and Performance of Portals 3.3 on the Cray XT3

Ron Brightwell, Trammell Hudson, Kevin Pedretti, Rolf Riesen, Keith D. Underwood
2005 Proceedings IEEE International Conference on Cluster Computing  
In this paper, we describe the implementation of Portals 3.3 on the Cray XT3 and present some initial performance results from several micro-benchmark tests.  ...  The latest version of Portals was initially developed for an 1800-node Linux/Myrinet cluster and has since been adopted by Cray as the lowest-level network programming interface for their XT3 platform.  ...  Acknowledgments The authors gratefully acknowledge the work of the members of the Scalable Computing Systems and Scalable Systems Integration departments at Sandia, especially Jim Laros and Sue Kelly.  ... 
doi:10.1109/clustr.2005.347061 dblp:conf/cluster/BrightwellHPRU05 fatcat:j4xfjnmc5fejxkzks57xu3zu5i

Early evaluation of IBM BlueGene/P

S. Alam, R. Barrett, M. Bast, M.R. Fahey, J. Kuehn, C. McCurdy, J. Rogers, P. Roth, R. Sankaran, J.S. Vetter, P. Worley, W. Yu
2008 2008 SC - International Conference for High Performance Computing, Networking, Storage and Analysis  
Our investigation confirms that BG/P has good scalability with an expected lower performance per processor when compared to the Cray XT4's Opteron.  ...  In this paper, we report on our examination of BG/P, presented in the context of a set of important scientific applications, and as compared to other major large scale supercomputers in use today.  ...  ACKNOWLEDGEMENTS This research used resources of the National Center for Computational Sciences at Oak Ridge National Laboratory, which is supported by the Office of Science of the Department of Energy  ... 
doi:10.1109/sc.2008.5214725 dblp:conf/sc/AlamBBFKMRRSVWY08 fatcat:4hvg22gxbbdrrfj4mi32zgpp4m

Scalability challenges for massively parallel AMR applications

Brian Van Straalen, John Shalf, Terry Ligocki, Noel Keen, Woo-Sun Yang
2009 2009 IEEE International Symposium on Parallel & Distributed Processing  
We describe optimizations to the Chombo AMR framework that enable it to scale efficiently to thousands of processors on the Cray XT4.  ...  Once identified, software modifications to control the variability improved performance by 20% and decreased the variation in computation time across processors by a factor of 3.  ...  The authors were supported by the Office of Advanced Scientific Computing Research in the Department of Energy under Contract DE-AC02-05CH11231.  ... 
doi:10.1109/ipdps.2009.5161014 dblp:conf/ipps/StraalenSLKY09 fatcat:irw6elhnzjevze24yt62azvksa

Performance of particle in cell methods on highly concurrent computational architectures

M F Adams, S Ethier, N Wichmann
2007 Journal of Physics, Conference Series  
Scaling of the code is demonstrated on ITER sized plasmas with up to 16K Cray XT3/4 cores.  ...  The gyrokinetic toroidal code (GTC) is used for these studies and a new radial grid decomposition is presented and evaluated.  ...  the Cray XT3/4 are presented in §4.  ... 
doi:10.1088/1742-6596/78/1/012001 fatcat:g3chfijc5bgmfjzb3qd2yhvnsu

ELDORADO

John Feo, David Harper, Simon Kahan, Petr Konecny
2005 Proceedings of the 2nd conference on Computing frontiers - CF '05  
Eldorado retains the programming model, operating system, and tools of the MTA-2.  ...  Cray systems.  ...  Eldorado reduces system costs by leveraging the development of the Red Storm system [1] Cray is building for Sandia National Laboratory and has brought to market as the XT3 [3] .  ... 
doi:10.1145/1062261.1062268 dblp:conf/cf/FeoHKK05 fatcat:7d7qkqqgbvbjfnmeux777utbti

Results and Frontiers in Lattice Baryon Spectroscopy

John Bulava, Robert Edwards, George Fleming, K. Jimmy Juge, Adam C. Lichtl, Nilmani Mathur, Colin Morningstar, David Richards, Stephen J. Wallace, Ricardo Alarcon, Philip L. Cole, Chaden Djalali (+1 others)
2007 AIP Conference Proceedings  
Future work of the project is outlined.  ...  To date the LHPC has performed exploratory Lattice QCD calculations of the low-lying spectrum of Nucleon and Delta baryons.  ...  Computational time has already been allotted for such runs using 10 million core-hours on the Cray XT3 at Oak Ridge National Lab and 3 million service units on the Cray XT3 'bigben' at the Pittsburgh Computing  ... 
doi:10.1063/1.2813791 fatcat:yrtxlk6ihzbolpflk7agxwaoli

Performance Measurement and Analysis of Large-Scale Parallel Applications on Leadership Computing Systems

Brian J.N. Wylie, Markus Geimer, Felix Wolf
2008 Scientific Programming  
supercomputer systems – Cray XT3/4, MareNostrum & Blue Gene/L – using the newly-developed SCALASCA toolset to quantify and isolate a range of significant performance issues.  ...  Developers of applications with large-scale computing requirements are currently presented with a variety of high-performance systems optimised for message-passing, however, effectively exploiting the  ...  This research also used resources of the National Center for Computational Sciences at Oak Ridge National Laboratory, which is supported by the Office of Science of the U.S.  ... 
doi:10.1155/2008/632685 fatcat:tqhasczurrdxhhfbhyqb7q7h5a

A preliminary analysis of the InfiniPath and XD1 network interfaces

R. Brightwell, D. Doerfler, K.D. Underwood
2006 Proceedings 20th IEEE International Parallel & Distributed Processing Symposium  
Both the InfiniPath network from PathScale, Inc., and the RapidArray fabric in the XD1 system from Cray, Inc., leverage commodity network fabrics while customizing the network interface in an attempt to  ...  Our evaluation includes several micro-benchmark results as well as some initial application performance data.  ...  The XD1 machine is a resource of the National Center for Computational Sciences at Oak Ridge National Laboratory, which is supported by the Office of Science of the U.S.  ... 
doi:10.1109/ipdps.2006.1639568 dblp:conf/ipps/BrightwellDU06 fatcat:bewvypammnehfdlinqtwnn2gfu
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