Publications

Dunlavy, D.M. (2011). Text Analysis Factor Modeling and Machine Learning [Presentation]. https://www.osti.gov/biblio/1661503

Swiler, L.P. (2011). Uncertainty Quantification: Part 3. Presentation at the Risk Informed Safety Margin Characterization workshop [Conference]. https://www.osti.gov/biblio/1111694

Carpenter, J.H., Wills, A.E., Rider, W., Berry, R.D., Debusschere, B.J., Robinson, A.C., Drake, R.R., & Drake, R.R. (2011). Uncertainty quantification of equation-of-state closures and shock hydrodynamics [Conference]. https://www.osti.gov/biblio/1141271

Berry, J., Plimpton, S.J., & Plimpton, S.J. (2011). Challenges in Streaming Analysis [Conference]. https://www.osti.gov/biblio/1111693

Parks, M.L., Plimpton, S.J., Silling, S.A., Lehoucq, R.B., & Lehoucq, R.B. (2011). Peridynamics with LAMMPS : a user guide. https://doi.org/10.2172/1031301

Schmidt, R., Belcourt, K., Hooper, R., Pawlowski, R., & Pawlowski, R. (2011). An introduction to LIME 1.0 and its use in coupling codes for multiphysics simulations. https://doi.org/10.2172/1031303

Najm, H.N., Debusschere, B.J., Eldred, M., & Eldred, M. (2011). Quantification of Uncertainty in Extreme Scale Computations (QUEST) [Conference]. https://www.osti.gov/biblio/1111617

Riesen, L. (2011). Department Review 1426 August 29 2011 [Presentation]. https://www.osti.gov/biblio/1661455

Schiek, R.L., Warrender, C., Thornquist, H., Mei, T., Keiter, E., Russo, T.V., & Russo, T.V. (2011). Advanced partitioning and integration techniques to improve parallel performance of densely connected neuron simulations [Conference]. https://www.osti.gov/biblio/1111634

Moreland, K., Fabian, N., & Fabian, N. (2011). Flexible In Situ with ParaView [Presentation]. https://www.osti.gov/biblio/1661458

Oldfield, R. (2011). Extending Scalability of Collective IO Through Nessie and Staging [Conference]. https://www.osti.gov/biblio/1111641

Lofstead, G.F. (2011). Next Generation I/O and Visualization Requirements for In Situ Processing [Presentation]. https://www.osti.gov/biblio/1661460

Hoemmen, M.F., Heroux, M.A., Ferreira, K.B., & Ferreira, K.B. (2011). Fault-tolerant iterative methods via selective reliability [Conference]. https://www.osti.gov/biblio/1111619

Rajamanickam, S., Boman, E.G., & Boman, E.G. (2011). An Evaluation of the Zoltan Parallel Graph and Hypergraph Partitioners [Conference]. https://www.osti.gov/biblio/1111609

Willenbring, J.M., Heroux, M.A., & Heroux, M.A. (2011). A High-Level View of the Trilinos Project. Scientific Programming. https://www.osti.gov/biblio/1111638

Kelly, S.M., Ballance, R.A., Brightwell, R.B., Laros, J.H., Minnich, R.G., & Minnich, R.G. (2011). System Software Working Group [Conference]. https://www.osti.gov/biblio/1111613

Wheeler, K.B., Stark, D., & Stark, D. (2011). Friar Tuck's Chapel: Qthreads & the Forest of Thieves [Presentation]. https://www.osti.gov/biblio/1661483

Moreland, K., Oldfield, R., Fabian, N., & Fabian, N. (2011). Examples of In Transit Visualization (Presentation Slides) [Presentation]. https://www.osti.gov/biblio/1661484

Moreland, K. (2011). An Image Compositing Solution at Scale [Presentation]. https://doi.org/10.1145/2063384.2063417

Moreland, K. (2011). Next Generation I/O and Visualization Requirements for In Situ Procesing [Presentation]. https://www.osti.gov/biblio/1661485

Gaidamour, J., Siefert, C., Tuminaro, R.S., Gerstenberger, A., & Gerstenberger, A. (2011). MueLu: A Framework for Developing Scalable Multigrid Preconditioners [Conference]. https://www.osti.gov/biblio/1111588

Ward, H.L. (2011). I/O Networking and Storage [Presentation]. https://www.osti.gov/biblio/1661486

Lofstead, G.F., Oldfield, R., & Oldfield, R. (2011). Resilient data staging through MxN distributed transactions. https://doi.org/10.2172/1031296

Oldfield, R. (2011). Data Services and Trilinos: Addressing I/O Challenges for Exascale Applications [Conference]. https://www.osti.gov/biblio/1111642

Lin, P.T., Shadid, J.N., Tuminaro, R.S., Hu, J.J., & Hu, J.J. (2011). HIgh Fidelity Semiconductor Device Simulations on Massively Parallel Platforms [Conference]. https://www.osti.gov/biblio/1118478

Aimone, J.B. (2011). Adult Hippocampal Neurogenesis - Role in Learning and Memory [Presentation]. https://www.osti.gov/biblio/1694432

Watson Ross, C., Glass, R., Harger, J., Conrad, S.H., Zagonel, A., Beyeler, W.E., Finley, M., & Finley, M. (2011). Development of an Agent Based Epidemiological Model of Beef Cattle [Conference]. https://www.osti.gov/biblio/1120157

Wills, A.E., Wixom, R.R., Mattsson, T., & Mattsson, T. (2011). Accurate Rankine-Hugoniot relationships for molecular crystal explosives calculated using density functional theory based molecular dynamics [Conference]. https://www.osti.gov/biblio/1118455

Hart, W.E., Watson, J., & Watson, J. (2011). Tackling Large-scale Optimization Problems within a Python-based Modeling Environment (Pyomo) [Conference]. https://www.osti.gov/biblio/1118443

Moreland, K. (2011). The ParaView Tutorial (Version 3.12) [Presentation]. https://www.osti.gov/biblio/1688685

Barrett, R.F., Heroux, M.A., Lin, P.T., Vaughan, C.T., Williams, A.B., & Williams, A.B. (2011). Copy of Mini-applications: Vehicles for Co-Design [Conference]. https://www.osti.gov/biblio/1140964

Lefantzi, S., McKenna, S.A., Ray, J., van Bloemen Waanders, B.G., & van Bloemen Waanders, B.G. (2011). Bayesian inference of multiscale structures in porous media [Conference]. https://www.osti.gov/biblio/1143904

Moreland, K. (2011). Boise State Invited Talk: Large-Scale Scientific Visualization: The State of the Art and Upcoming Challenges [Presentation]. https://www.osti.gov/biblio/1661415

Abbott, R.G. (2011). Computational models of intergroup competition and warfare. https://doi.org/10.2172/1034876

Neupane, M.R., Rahman, R., Lake, R.K., & Lake, R.K. (2011). Carrier leakage in Ge/Si core-shell nanocrystals for lasers: Core size and strain effects [Conference]. Proceedings of SPIE - The International Society for Optical Engineering. https://www.scopus.com/inward/record.uri?partnerID=HzOxMe3b&scp=80054071151&origin=inward

Lefantzi, S., Klise, K.A., Salazar, L., McKenna, S.A., van Bloemen Waanders, B.G., Ray, J., & Ray, J. (2011). Bayesian data assimilation for stochastic multiscale models of transport in porous media. https://doi.org/10.2172/1030232

Thompson, A.P., Lane, J.M.D., Zimmerman, J.A., & Zimmerman, J.A. (2011). Modeling ramp compression experiments using large-scale molecular dynamics simulation. https://doi.org/10.2172/1030397

Laros, J.H., Pedretti, K., Kelly, S.M., Vaughan, C.T., & Vaughan, C.T. (2011). Energy Based Performance Tuning for Large Scale High Performance Computing Systems [Conference]. https://www.osti.gov/biblio/1106890

Swiler, L.P., Urbina, A., & Urbina, A. (2011). First-order reduced-space formulations for parameter estimation within the frameworks of steady state dynamics: The elastic and viscoelastic case. Inverse Problems. https://www.osti.gov/biblio/1106825

Swiler, L.P. (2011). Multiple Model Inference: Calibration Selection and Prediction with Multiple Models [Conference]. https://www.osti.gov/biblio/1109382

Littlewood, D.J. (2011). Peridynamics in Sierra/SolidMechanics [Presentation]. https://www.osti.gov/biblio/1663363

Leung, V.J. (2011). Task Mapping for Noncontiguous Allocations [Conference]. https://www.osti.gov/biblio/1118485

Vineyard, C.M., Verzi, S.J., Taylor, S.E., Dubicka, I., Bernard, M., & Bernard, M. (2011). Augmented cognition tool for rapid military decision making. https://doi.org/10.2172/1029756

Ferreira, K.B., Brightwell, R.B., & Brightwell, R.B. (2011). Checkpoint Compression for Extreme Scale Fault Tolerance [Conference]. https://www.osti.gov/biblio/1106330

Ferreira, K.B. (2011). Detection and Correction of Silent Data Corruption for Large-Scale High-Performance Computing [Conference]. https://www.osti.gov/biblio/1141035

Stewart, J. (2011). Simulation Based Predictive Science [Conference]. https://www.osti.gov/biblio/1118545

Littlewood, D.J., Allan, B., & Allan, B. (2011). Investigation of Threading Options and Performance in Sierra/SM's Peridynamics Element [Presentation]. https://www.osti.gov/biblio/1664668

Ebeida, M., Mitchell, S.A., & Mitchell, S.A. (2011). New approaches to solve the meshing problem [Conference]. https://www.osti.gov/biblio/1106972

Stearley, J., Robinson, D.G., Hooper, R., Stickland, M., McLendon, W., Williams, A.S., Rodrigues, A., & Rodrigues, A. (2011). SNL software manual for the ACS Data Analytics Project. https://doi.org/10.2172/1029770

Silling, S.A. (2011). Coarse Graining in Peridynamics [Conference]. https://www.osti.gov/biblio/1106504

Ebeida, M., Mitchell, S.A., & Mitchell, S.A. (2011). New approaches to solve the meshing problem [Conference]. https://www.osti.gov/biblio/1107026

Parks, M.L., Heroux, M.A., Frischknecht, A.L., Day, D.M., & Day, D.M. (2011). Enabling Tools for Extreme Scale Computation of Nanoscale Fluids [Presentation]. https://www.osti.gov/biblio/1664676

Rider, W., Weirs, G., Love, E., & Love, E. (2011). Dynamic Compressible Flow Verification Problems: Oldies but Goodies [Conference]. https://www.osti.gov/biblio/1118504

Wheeler, K.B. (2011). Hierarchical resilience with lightweight threads. https://doi.org/10.2172/1029809

Phipps, E.T., Constantine, P., & Constantine, P. (2011). A Posteriori Error Analysis of Stochastic Differential Equations Using Polynomial Chaos Approximations [Conference]. https://www.osti.gov/biblio/1106168

Stracuzzi, D.J. (2011). A Plausible Logic Inference Engine [Conference]. https://www.osti.gov/biblio/1118573

Phipps, E.T. (2011). Embedded Stochastic Galerkin Projection and Solver Methods via Template-based Generic Programming [Conference]. https://www.osti.gov/biblio/1106253

Spotz, W.F. (2011). PyTrilinos: Recent Advances in the Python Interface to Trilinos. Scientific Programming. https://www.osti.gov/biblio/1106836

Gerstenberger, A., Tuminaro, R.S., & Tuminaro, R.S. (2011). Algebraic Multigrid Techniques for the eXtended Finite Element Method [Conference]. https://www.osti.gov/biblio/1107002

Rohrer, B.R. (2011). BECCA: Reintegrating AI for Natural World Interaction [Conference]. https://www.osti.gov/biblio/1118491

Lin, P.T. (2011). Large-Scale Parallel Performance of Algebraic Multigrid Preconditioners for Multiphysics Systems [Conference]. https://www.osti.gov/biblio/1106290

Gaudioso, J.M. (2011). International Collaborations to Counter Biological Threats [Conference]. https://www.osti.gov/biblio/1118512

Eldred, M. (2011). Uncertainty Quantification Tutorial for Computer Scientists [Conference]. https://www.osti.gov/biblio/1118483

Siirola, J.D., Hart, W.E., & Hart, W.E. (2011). COLIN: Optimization Infrastructure for Hybrid Algorithms [Conference]. https://www.osti.gov/biblio/1118568

Fabian, N., Moreland, K., & Moreland, K. (2011). The ParaView Coprocessing Library A Scalable General Purpose In Situ Visualization Library [Conference]. https://www.osti.gov/biblio/1118486

Carr, R.D., Parekh, O., & Parekh, O. (2011). A 2-edge-connected spanning subgraph problem [Conference]. https://www.osti.gov/biblio/1106816

Stewart, J. (2011). NEAMS VU Overview [Conference]. https://www.osti.gov/biblio/1118561

Gaudioso, J.M. (2011). International Biological Threat Reduction Program [Presentation]. https://www.osti.gov/biblio/1664715

Wilson, A.T., Dunlavy, D.M., & Dunlavy, D.M. (2011). TopicView Poster Preview [Presentation]. https://www.osti.gov/biblio/1661532

Root, S., Magyar, R.J., Wills, A.E., Mattsson, T., & Mattsson, T. (2011). Shock Compression of Liquid Noble Gases to Several Mbar [Conference]. https://www.osti.gov/biblio/1113044

Davison, S.M., Jayaraman, S., Cordaro, J.G., Kruizenga, A.M., & Kruizenga, A.M. (2011). Thermophysical Properties of Molten Salts [Conference]. https://www.osti.gov/biblio/1113116

Edwards, H.C. (2011). Manycore Performance-Portable Finite Element Kernels via Kokkos Arrays [Conference]. https://www.osti.gov/biblio/1111766

Sunderland, D., Porter, V.L., Edwards, H.C., & Edwards, H.C. (2011). MANYCORE PERFORMANCE-PORTABILITY: KOKKOS ARRAY LIBRARY. Scientific Programming. https://www.osti.gov/biblio/1141198

Peterson, K. (2011). CVFEM and Climate Visualization Applications Using Intrepid [Conference]. https://www.osti.gov/biblio/1118554

Willenbring, J.M. (2011). Framework and Tools Trilinos Capability Area [Presentation]. https://www.osti.gov/biblio/1661519

Shadid, J.N., Tuminaro, R.S., & Tuminaro, R.S. (2011). Teko: A package for block preconditioning [Conference]. https://www.osti.gov/biblio/1118543

Schultz, P.A. (2011). Progress toward bridging from atomistic to continuum modeling to predict nuclear waste glass dissolution. https://doi.org/10.2172/1030400

Pawlowski, R., Phipps, E.T., Salinger, A.G., & Salinger, A.G. (2011). Building Hierarchical Toolchains for Nonlinear Analysis [Conference]. https://www.osti.gov/biblio/1111722

Pawlowski, R., Cyr, E.C., Shadid, J.N., & Shadid, J.N. (2011). Panzer: A Finite Element Assembly Engine for Multiphysics Simulation [Conference]. https://www.osti.gov/biblio/1118484

Thornquist, H., Hoemmen, M.F., Heroux, M.A., Lehoucq, R.B., Parks, M.L., Day, D.M., & Day, D.M. (2011). A Tutorial on Anasazi and Belos [Presentation]. https://www.osti.gov/biblio/1661524

Turner, D.Z. (2011). Multiphysics Modeling of Pre-ignition Damage in Energetic Materials and the Effect on Cookoff Violence [Conference]. https://www.osti.gov/biblio/1118556

Wilson, A.T., Dunlavy, D.M., & Dunlavy, D.M. (2011). TopicView: Visually Comparing Topic Models of Text Collections [Presentation]. https://doi.org/10.1109/ICTAI.2011.162

Trumbo, M.C.S., Haass, M.J., Adams, S.S., Hendrickson, S.M., Abbott, R.G., & Abbott, R.G. (2011). Robust automated knowledge capture. https://doi.org/10.2172/1031882

Barrett, B., Brightwell, R.B., Hemmert, K.S., Wheeler, K.B., Underwood, K.D., & Underwood, K.D. (2011). Using triggered operations to offload rendezvous messages [Conference]. Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics). https://www.scopus.com/inward/record.uri?partnerID=HzOxMe3b&scp=80053000909&origin=inward

Ferreira, K.B., Riesen, R., Brightwell, R.B., Bridges, P., Arnold, D., & Arnold, D. (2011). Libhashckpt: Hash-based incremental checkpointing using GPU's [Conference]. Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics). https://www.scopus.com/inward/record.uri?partnerID=HzOxMe3b&scp=80052994874&origin=inward

Lehoucq, R.B., Sears, M.P., & Sears, M.P. (2011). Statistical mechanical foundation of the peridynamic nonlocal continuum theory: Energy and momentum conservation laws [Conference]. Physical Review E - Statistical, Nonlinear, and Soft Matter Physics. https://www.scopus.com/inward/record.uri?partnerID=HzOxMe3b&scp=80053040343&origin=inward

Lindsay, A.M., Galloway-Carson, M., Johnson, C.R., Bunde, D.P., Leung, V.J., & Leung, V.J. (2011). Backfilling with guarantees granted upon job submission [Conference]. Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics). https://www.scopus.com/inward/record.uri?partnerID=HzOxMe3b&scp=80052390195&origin=inward

Plimpton, S.J., Devine, K., & Devine, K. (2011). MapReduce in MPI for Large-scale graph algorithms. Parallel Computing, 37(9), pp. 610-632. https://www.scopus.com/inward/record.uri?partnerID=HzOxMe3b&scp=80052031568&origin=inward

Rider, W., Love, E., Scovazzi, G., & Scovazzi, G. (2011). Limited Artificial Viscosity and Hyperviscosity Based on a Nonlinear Hybridization Method [Conference]. https://www.osti.gov/biblio/1119754

Davis, J.P., Lane, J.M.D., Thompson, A.P., Drake, R.R., Weirs, G., Flicker, D., Robbins, J., Lemke, R.W., Martin, M.R., Alexander, C.S., Haill, T.A., Ao, T., Dolan, D.H., & Dolan, D.H. (2011). 4th Workshop on Ramp Compression [Presentation]. https://www.osti.gov/biblio/1671679

Parks, M.L., Lehoucq, R.B., Kamm, J., & Kamm, J. (2011). A New Approach to Nonlocal Advection [Presentation]. https://www.osti.gov/biblio/1663308

Moreland, K. (2011). Dax: Data Analysis at Extreme Department Review 2011 [Presentation]. https://www.osti.gov/biblio/1663312

Moreland, K., Oldfield, R., Fabian, N., & Fabian, N. (2011). Examples of In Transit Visualization [Conference]. https://www.osti.gov/biblio/1106221

Lechman, J.B., Plimpton, S.J., Grest, G.S., & Grest, G.S. (2011). Evaporation of Lennard-Jones Fluids and Evaporation-Induced Nanoparticle Assembly: Molecular Dynamics Studies [Conference]. https://www.osti.gov/biblio/1106348

Weirs, G. (2011). Slides for Brannon talk at DTRA [Presentation]. https://www.osti.gov/biblio/1663316

Carr, R.D., Parekh, O., & Parekh, O. (2011). Approximating a capacitated 2-edge-connected spanning subgraph problem. Operations Research Letters. https://www.osti.gov/biblio/1106938

Martinez, M., Red-Horse, J.R., Carnes, B., Mesh, M., Field, R.V., Davison, S.M., Yoon, H., Bishop, J.E., Newell, P., Notz, P.K., Turner, D.Z., Subia, S.R., Hopkins, P.L., Moffat, H.K., Jove-Colon, C.F., Dewers, T., Klise, K.A., & Klise, K.A. (2011). Computational thermal, chemical, fluid, and solid mechanics for geosystems management. https://doi.org/10.2172/1029788

Wagner, G.J., Deng, J., Erickson, L., Plimpton, S.J., Thompson, A.P., Zhou, X., Zimmerman, J.A., & Zimmerman, J.A. (2011). Accelerated molecular dynamics and equation-free methods for simulating diffusion in solids. https://doi.org/10.2172/1030307

Knupp, P., Urbina, A., & Urbina, A. (2011). A design for a V&V and UQ discovery process. https://doi.org/10.2172/1029784

Ridzal, D., Bochev, P., & Bochev, P. (2011). A toolbox for a class of discontinuous Petrov-Galerkin methods using trilinos. https://doi.org/10.2172/1029782