Jarek Nieplocha

Jarek Nieplocha, Manojkumar Krishnan, Bruce Palmer, Vinod Tipparaju, Robert J. Harrison, Daniel G. Chavarría-Miranda: Global Arrays Parallel Programming Toolkit. Encyclopedia of Parallel Computing 2011: 779-787

Marat Valiev, Eric J. Bylaska, Niranjan Govind, Karol Kowalski, Tjerk P. Straatsma, H. J. J. Van Dam, D. Wang, Jarek Nieplocha, Edoardo Aprà, Theresa L. Windus, Wibe A. deJong: NWChem: A comprehensive and scalable open-source solution for large scale molecular simulations. Computer Physics Communications 181(9): 1477-1489 (2010)

Juan Piernas Cánovas, Jarek Nieplocha: Implementation and evaluation of active storage in modern parallel file systems. Parallel Computing 36(1): 26-47 (2010)

Ian Gorton, Daniel G. Chavarría-Miranda, Jarek Nieplocha: Design and implementation of a high-performance CCA event service. Concurrency and Computation: Practice and Experience 21(9): 1159-1179 (2009)

Oreste Villa, Sriram Krishnamoorthy, Jarek Nieplocha, David M. Brown Jr.: Scalable transparent checkpoint-restart of global address space applications on virtual machines over infiniband. Conf. Computing Frontiers 2009: 197-206

James Dinan, D. Brian Larkins, P. Sadayappan, Sriram Krishnamoorthy, Jarek Nieplocha: Scalable work stealing. SC 2009

Aniruddha G. Shet, P. Sadayappan, David E. Bernholdt, Jarek Nieplocha, Vinod Tipparaju: A framework for characterizing overlap of communication and computation in parallel applications. Cluster Computing 11(1): 75-90 (2008)

Juan Piernas, Jarek Nieplocha: Efficient Management of Complex Striped Files in Active Storage. Euro-Par 2008: 676-685

Jarek Nieplocha, Sriram Krishnamoorthy, Marat Valiev, Manojkumar Krishnan, Bruce Palmer, P. Sadayappan: Integrated Data and Task Management for Scientific Applications. ICCS (1) 2008: 20-31

James Dinan, Sriram Krishnamoorthy, D. Brian Larkins, Jarek Nieplocha, P. Sadayappan: Scioto: A Framework for Global-View Task Parallelism. ICPP 2008: 586-593

Manojkumar Krishnan, Jarek Nieplocha, Michael Blocksome, Brian E. Smith: Evaluation of Remote Memory Access Communication on the IBM Blue Gene/P Supercomputer. ICPP Workshops 2008: 109-115

Daniel G. Chavarría-Miranda, Andrès Márquez, Jarek Nieplocha, Kristyn J. Maschhoff, Chad Scherrer: Early experience with out-of-core applications on the Cray XMT. IPDPS 2008: 1-8

Steven Benson, Manojkumar Krishnan, Lois C. McInnes, Jarek Nieplocha, Jason Sarich: Using the GA and TAO toolkits for solving large-scale optimization problems on parallel computers. ACM Trans. Math. Softw. 33(2): 11 (2007)

Jarek Nieplocha, Andrès Márquez, John Feo, Daniel G. Chavarría-Miranda, George Chin Jr., Chad Scherrer, Nathaniel Beagley: Evaluating the potential of multithreaded platforms for irregular scientific computations. Conf. Computing Frontiers 2007: 47-58

Sriram Krishnamoorthy, Juan Piernas, Vinod Tipparaju, Jarek Nieplocha, P. Sadayappan: Non-collective parallel I/O for global address space programming models. CLUSTER 2007: 41-49

Daniele Paolo Scarpazza, Patrick Mullaney, Oreste Villa, Fabrizio Petrini, Vinod Tipparaju, D. M. L. Brown, Jarek Nieplocha: Transparent system-level migration of PGAS applications using Xen on InfiniBand. CLUSTER 2007: 74-83

Sriram Krishnamoorthy, Ümit V. Çatalyürek, Jarek Nieplocha, Atanas Rountev, P. Sadayappan: A global address space framework for locality aware scheduling of block-sparse computations. IPDPS 2007: 1-8

Manojkumar Krishnan, S. Bohn, W. Cowley, Vernon L. Crow, Jarek Nieplocha: Scalable Visual Analytics of Massive Textual Datasets. IPDPS 2007: 1-10

Chad Scherrer, Nathaniel Beagley, Jarek Nieplocha, Andrès Márquez, John Feo, Daniel G. Chavarría-Miranda: Probability Convergence in a Multithreaded Counting Application. IPDPS 2007: 1-5

Vinod Tipparaju, Andriy Kot, Jarek Nieplocha, Monika ten Bruggencate, Nikos Chrisochoides: Evaluation of Remote Memory Access Communication on the Cray XT3. IPDPS 2007: 1-7

Vinod Tipparaju, Manojkumar Krishnan, Bruce Palmer, Fabrizio Petrini, Jarek Nieplocha: Towards Fault Resilient Global Arrays. PARCO 2007: 339-345

Juan Piernas, Jarek Nieplocha, Evan J. Felix: Evaluation of active storage strategies for the lustre parallel file system. SC 2007: 28

David E. Bernholdt, Benjamin A. Allan, Robert C. Armstrong, Felipe Bertrand, Kenneth Chiu, Tamara Dahlgren, Kostadin Damevski, Wael R. Elwasif, Thomas Epperly, Madhusudhan Govindaraju, Daniel S. Katz, James Arthur Kohl, Manojkumar Krishnan, Gary Kumfert, Jay Walter Larson, Sophia Lefantzi, Michael J. Lewis, Allen D. Malony, Lois C. McInnes, Jarek Nieplocha, Boyana Norris, Steven G. Parker, Jaideep Ray, Sameer Shende, Theresa L. Windus, Shujia Zhou: A Component Architecture for High-Performance Scientific Computing. IJHPCA 20(2): 163-202 (2006)

Jarek Nieplocha, Bruce Palmer, Vinod Tipparaju, Manojkumar Krishnan, Harold Trease, Edoardo Aprà: Advances, Applications and Performance of the Global Arrays Shared Memory Programming Toolkit. IJHPCA 20(2): 203-231 (2006)

Jarek Nieplocha, Vinod Tipparaju, Manojkumar Krishnan, Dhabaleswar K. Panda: High Performance Remote Memory Access Communication: The Armci Approach. IJHPCA 20(2): 233-253 (2006)

Fabrizio Petrini, Jarek Nieplocha, Vinod Tipparaju: SFT: scalable fault tolerance. Operating Systems Review 40(2): 55-62 (2006)

Sriram Krishnamoorthy, Gerald Baumgartner, Chi-Chung Lam, Jarek Nieplocha, P. Sadayappan: Layout transformation support for the disk resident arrays framework. The Journal of Supercomputing 36(2): 153-170 (2006)

Chris Oehmen, Jarek Nieplocha: ScalaBLAST: A Scalable Implementation of BLAST for High-Performance Data-Intensive Bioinformatics Analysis. IEEE Trans. Parallel Distrib. Syst. 17(8): 740-749 (2006)

Manojkumar Krishnan, Jarek Nieplocha: Memory efficient parallel matrix multiplication operation for irregular problems. Conf. Computing Frontiers 2006: 229-240

Daniel G. Chavarría-Miranda, Jarek Nieplocha, Vinod Tipparaju: Topology-aware tile mapping for clusters of SMPs. Conf. Computing Frontiers 2006: 383-392

Aniruddha G. Shet, P. Sadayappan, David E. Bernholdt, Jarek Nieplocha, Vinod Tipparaju: A Performance Instrumentation Framework to Characterize Computation-Communication Overlap in Message-Passing Systems. CLUSTER 2006

Sriram Krishnamoorthy, Ümit V. Çatalyürek, Jarek Nieplocha, Atanas Rountev, P. Sadayappan: An extensible global address space framework with decoupled task and data abstractions. IPDPS 2006

Sriram Krishnamoorthy, Ümit V. Çatalyürek, Jarek Nieplocha, P. Sadayappan: An approach to locality-conscious load balancing and transparent memory hierarchy management with a global-address-space parallel programming model. IPDPS 2006

Sriram Krishnamoorthy, Ümit V. Çatalyürek, Jarek Nieplocha, Atanas Rountev, P. Sadayappan: Data management and query - Hypergraph partitioning for automatic memory hierarchy management. SC 2006: 98

Michael Blocksome, Charles Archer, Todd Inglett, Patrick McCarthy, Michael Mundy, Joe Ratterman, A. Sidelnik, Brian E. Smith, George Almási, José G. Castaños, Derek Lieber, José E. Moreira, Sriram Krishnamoorthy, Vinod Tipparaju, Jarek Nieplocha: Blue Gene system software - Design and implementation of a one-sided communication interface for the IBM eServer Blue Gene® supercomputer. SC 2006: 120

Jarek Nieplocha, Bruce Palmer, Manojkumar Krishnan, P. Sadayappan: M12 - Overview of the global arrays parallel software development toolkit. SC 2006: 226

Jon Beecroft, David Addison, David Hewson, Moray McLaren, Duncan Roweth, Fabrizio Petrini, Jarek Nieplocha: QsNetII: Defining High-Performance Network Design. IEEE Micro 25(4): 34-47 (2005)

Jarek Nieplocha, Manojkumar Krishnan, Bruce Palmer, Vinod Tipparaju, Yeliang Zhang: Exploiting processor groups to extend scalability of the GA shared memory programming model. Conf. Computing Frontiers 2005: 262-272

Jarek Nieplocha, Doug Baxter, Vinod Tipparaju, Craig Edward Rasmussen, Robert W. Numrich: Symmetric Data Objects and Remote Memory Access Communication for Fortran-95 Applications. Euro-Par 2005: 720-729

Sriram Krishnamoorthy, Jarek Nieplocha, P. Sadayappan: Data and Computation Abstractions for Dynamic and Irregular Computations. HiPC 2005: 258-269

Jarek Nieplocha, Vinod Tipparaju, Edoardo Aprà: An Evaluation of Two Implementation Strategies for Optimizing One-Sided Atomic Reduction. IPDPS 2005

Yeliang Zhang, Vinod Tipparaju, Jarek Nieplocha, Salim Hariri: Parallelization of the NAS Conjugate Gradient Benchmark Using the Global Arrays Shared Memory Programming Model. IPDPS 2005

Manojkumar Krishnan, Yuri Alexeev, Theresa L. Windus, Jarek Nieplocha: Multilevel Parallelism in Computational Chemistry using Common Component Architecture and Global Arrays. SC 2005: 23

Vinod Tipparaju, Jarek Nieplocha: Optimizing All-to-All Collective Communication by Exploiting Concurrency in Modern Networks. SC 2005: 46

Jarek Nieplocha, Vinod Tipparaju, Manojkumar Krishnan, Gopalakrishnan Santhanaraman, Dhabaleswar K. Panda: Optimisation and performance evaluation of mechanisms for latency tolerance in remote memory access communication on clusters. IJHPCN 2(2/3/4): 198-209 (2004)

Craig Edward Rasmussen, Matthew J. Sottile, Jarek Nieplocha, Robert W. Numrich, Eric Jones: Co-array Python: A Parallel Extension to the Python Language. Euro-Par 2004: 632-637

Sriram Krishnamoorthy, Gerald Baumgartner, Chi-Chung Lam, Jarek Nieplocha, P. Sadayappan: Efficient Layout Transformation for Disk-Based Multidimensional Arrays. HiPC 2004: 386-398

Matthew Rosing, Jarek Nieplocha, Steve Yabusaki: Toward Efficient Compilation of User-Defined Extensible Fortran Directives. HIPS 2004: 61-69

Manojkumar Krishnan, Jarek Nieplocha: Optimizing Parallel Multiplication Operation for Rectangular and Transposed Matrices. ICPADS 2004: 257-266

Manojkumar Krishnan, Vinod Tipparaju, Bruce Palmer, Jarek Nieplocha: Processor-Group Aware Runtime Support for Shared- and Global-Address Space Models. ICPP Workshops 2004: 506-513

Manojkumar Krishnan, Jarek Nieplocha: SRUMMA: A Matrix Multiplication Algorithm Suitable for Clusters and Scalable Shared Memory Systems. IPDPS 2004

Vinod Tipparaju, Gopalakrishnan Santhanaraman, Jarek Nieplocha, Dhabaleswar K. Panda: Host-Assisted Zero-Copy Remote Memory Access Communication on InfiniBand. IPDPS 2004

Jarek Nieplocha, Edoardo Aprà, Jialin Ju, Vinod Tipparaju: One-Sided Communication on Clusters with Myrinet. Cluster Computing 6(2): 115-124 (2003)

Jarek Nieplocha, Vinod Tipparaju, Manojkumar Krishnan, Gopalakrishnan Santhanaraman, Dhabaleswar K. Panda: Optimizing Mechanisms for Latency Tolerance in Remote Memory Access Communication on Clusters. CLUSTER 2003: 138-147

Bruce Palmer, Jarek Nieplocha, Edoardo Aprà: Shared Memory Mirroring for Reducing Communication Overhead on Commodity Networks. CLUSTER 2003: 420-

Vinod Tipparaju, Manojkumar Krishnan, Jarek Nieplocha, Gopalakrishnan Santhanaraman, Dhabaleswar K. Panda: Exploiting Non-blocking Remote Memory Access Communication in Scientific Benchmarks. HiPC 2003: 248-258

Rinku Gupta, Pavan Balaji, Dhabaleswar K. Panda, Jarek Nieplocha: Efficient Collective Operations Using Remote Memory Operations on VIA-Based Clusters. IPDPS 2003: 46

Vinod Tipparaju, Jarek Nieplocha, Dhabaleswar K. Panda: Fast Collective Operations Using Shared and Remote Memory Access Protocols on Clusters. IPDPS 2003: 84

Darius Buntinas, Amina Saify, Dhabaleswar K. Panda, Jarek Nieplocha: Optimizing Synchronization Operations for Remote Memory Communication Systems. IPDPS 2003: 199

Rinku Gupta, Vinod Tipparaju, Jarek Nieplocha, Dhabaleswar K. Panda: Efficient Barrier Using Remote Memory Operations on VIA-Based Clusters. CLUSTER 2002: 83-

Jarek Nieplocha, Vinod Tipparaju, Amina Saify, Dhabaleswar K. Panda: Protocols and Strategies for Optimizing Performance of Remote Memory Operations on Clusters. IPDPS 2002

Bruce Palmer, Jarek Nieplocha: Efficient Algorithms for Ghost Cell Updates on Two Classes of MPP Architectures. IASTED PDCS 2002: 192-197

Jarek Nieplocha, Jialin Ju, Edoardo Aprà: One-sided Communication on the Myrinet-based SMP Clusters using the GM Message-Passing Library. IPDPS 2001: 166

Jarek Nieplocha, Harold Trease, Jialin Ju, D. Rector, Bruce Palmer: Building an Application Domain Specific Programming Framework for Computational Fluid Dynamics Calculations on Parallel Computers. PPSC 2001

Ross H. Nobes, Alistair P. Rendell, Jarek Nieplocha: Computational chemistry on Fujitsu vector-parallel processors: Hardware and programming environment. Parallel Computing 26(7-8): 869-886 (2000)

Jarek Nieplocha, Jialin Ju, Tjerk P. Straatsma: A Multiprotocol Communication Support for the Global Address Space Programming Model on the IBM SP. Euro-Par 2000: 718-728

Jarek Nieplocha, Holger Dachsel, Ian T. Foster: Implementing noncollective parallel I/O in cluster environments using Active Message communication. Cluster Computing 2(4): 271-279 (1999)

Jarek Nieplocha, Bryan Carpenter: ARMCI: A Portable Remote Memory Copy Libray for Ditributed Array Libraries and Compiler Run-Time Systems. IPPS/SPDP Workshops 1999: 533-546

Jarek Nieplocha, Ian T. Foster, Holger Dachsel: Distant I/O: One-Sided Access to Secondary Storage on Remote Processors. HPDC 1998: 148-154

Gautam Shah, Jarek Nieplocha, Jamshed H. Mirza, Chulho Kim, Robert J. Harrison, Rama Govindaraju, Kevin J. Gildea, Paul DiNicola, Carl A. Bender: Performance and Experience with LAPI - a New High-Performance Communication Library for the IBM RS/6000 SP. IPPS/SPDP 1998: 260-266

Holger Dachsel, Jarek Nieplocha, Robert J. Harrison: An out-of-core implementation of the COLUMBUS massively-parallel multireference configuration interaction program. SC 1998: 41

Holger Dachsel, Hans Lischka, Ron L. Shepard, Jarek Nieplocha, Robert J. Harrison: A massively parallel multireference configuration interaction program: The parallel COLUMBUS program. Journal of Computational Chemistry 18(3): 430-448 (1997)

Jarek Nieplocha, Robert J. Harrison: Shared Memory Programming in Metacomputing Environments: The Global Array Approach. The Journal of Supercomputing 11(2): 119-136 (1997)

Ying Chen, Jarek Nieplocha, Ian T. Foster, Marianne Winslett: Optimizing Collective I/O Performance on Parallel Computers: A Multisystem Study. International Conference on Supercomputing 1997: 28-35

Robert J. Harrison, Martyn F. Guest, Ricky A. Kendall, David E. Bernholdt, Adrian T. Wong, Mark Stave, James L. Anchell, Anthony C. Hess, Rik J. Littlefield, George L. Fann, Jarek Nieplocha, Greg S. Thomas, David Elwood, Jeffrey L. Tilson, Ron L. Shepard, Albert F. Wagner, Ian T. Foster, Ewing L. Lusk, Rick Stevens: Toward high-performance computational chemistry: II. A scalable self-consistent field program. Journal of Computational Chemistry 17(1): 124-132 (1996)

Jarek Nieplocha, Robert J. Harrison, Richard J. Littlefield: Global arrays: A nonuniform memory access programming model for high-performance computers. The Journal of Supercomputing 10(2): 169-189 (1996)

Jarek Nieplocha, Robert J. Harrison: Shared Memory NUMA Programming on I-WAY. HPDC 1996: 432-

Martyn F. Guest, Edoardo Aprà, David E. Bernholdt, Herbert A. Früchtl, Robert J. Harrison, Ricky A. Kendall, R. A. Kutteh, X. Long, John B. Nicholas, J. A. Nicholas, H. L. Tylor, Adrian T. Wong, G. J. Fann, Richard J. Littlefield, Jarek Nieplocha: High Performance Computational Chemistry: NWChem and Fully Distributed Parallel Applications. PARA 1995: 278-294

Jarek Nieplocha, Tsun-Zee Mai: Performance Improvement of Asynchronous Iterations by Non-Uniform Load Distribution. PPSC 1995: 508-509

Jarek Nieplocha, Robert J. Harrison, Richard J. Littlefield: Global arrays: a portable "shared-memory" programming model for distributed memory computers. SC 1994: 340-349