Publications

Rohrer, B.R. (2010). X-trees: An unsupervised learning method for use in developmental agents [Conference]. https://www.osti.gov/biblio/1124314

Dunlavy, D.M., Kolda, T.G., & Kolda, T.G. (2010). Poblano v1.0 : a Matlab toolbox for gradient-based optimization. https://doi.org/10.2172/989350

Wills, A.E., Wixom, R.R., Mattsson, T., & Mattsson, T. (2010). On calculating the equilibrium structure of molecular crystals [Conference]. https://www.osti.gov/biblio/988568

Hao, F., Wills, A.E., & Wills, A.E. (2010). The missing ingredient of confinement physics in density functionals [Conference]. https://www.osti.gov/biblio/988567

Naegle, J.H., Monk, S.T., Schutt, J., Doerfler, D.W., Rajan, M., & Rajan, M. (2010). HPC top 10 InfiniBand Machine : a 3D Torus IB interconnect on Red Sky [Conference]. https://www.osti.gov/biblio/988974

Brightwell, R.B., Ward, H.L., & Ward, H.L. (2010). A lightweight, GPU-based software RAID system [Conference]. https://www.osti.gov/biblio/988970

Carroll, M.S., Witzel, W., & Witzel, W. (2010). Combining dynamical decoupling with optimal control for improved QIP [Conference]. https://www.osti.gov/biblio/989389

Jayaraman, S. (2010). Solid-liquid phase coexistence of alkali nitrates from molecular dynamics simulations [Conference]. https://www.osti.gov/biblio/989975

Lane, J.M.D., Thompson, A.P., Zimmerman, J.A., & Zimmerman, J.A. (2010). Characteristic curves and scaling for shockless compression from atomistic molecular dynamics [Conference]. https://www.osti.gov/biblio/990062

Salton, J., Buerger, S., Marron, L.C., Feddema, J.T., Fischer, G.J., Little, C.Q., Spletzer, B., Xavier, P.G., & Xavier, P.G. (2010). Urban Hopper : SPIE Conference briefing [Conference]. https://www.osti.gov/biblio/990042

Ferreira, K.B., Riesen, R., Robinson, D.G., & Robinson, D.G. (2010). Modeling Job Interrupts on Redundant Computing HPC Systems [Conference]. https://www.osti.gov/biblio/1113884

Oldfield, R., Brightwell, R.B., Pedretti, K., Riesen, R., Ferreira, K.B., Kelly, S.M., Laros, J.H., & Laros, J.H. (2010). System Software Research for Extreme-Scale Computing [Presentation]. https://www.osti.gov/biblio/1673292

Swiler, L.P., Eldred, M., Adams, B.M., & Adams, B.M. (2010). Uncertainty Quantification: Lecture for TEDS CLASS ESP700 [Presentation]. https://www.osti.gov/biblio/1694488

Santarelli, K.R. (2010). New Results in the Design of Switched Feedback Controllers for Linear Systems [Presentation]. https://www.osti.gov/biblio/1673489

Edwards, H.C. (2010). Performance concerns when iterating hybrid-parallel kernels [Conference]. https://www.osti.gov/biblio/989979

Lehoucq, R.B. (2010). Classical Nonlocal and Fractional Diffusion Equations. International Journal for Multiscale Computational Engineering. https://www.osti.gov/biblio/1114172

Ridzal, D., Bochev, P., Scovazzi, G., Peterson, K., & Peterson, K. (2010). Optimization-based constrained modeling : a new transport paradigm [Conference]. https://www.osti.gov/biblio/990087

Taube, A.G. (2010). Orbital Optimized MBPT(2) as a Non-local Optimized Effective Potential [Conference]. https://www.osti.gov/biblio/1141883

Eldred, M., Swiler, L.P., & Swiler, L.P. (2010). Mixed Aleatory-Epistemic Uncertainty Quantification with Stochastic Expansions and Optimization-Based Interval Estimation. Reliability Engineering and System Safety. https://www.osti.gov/biblio/1114165

Landahl, A.J. (2010). How to build a fault-tolerant logical qubit with quantum dots [Conference]. https://www.osti.gov/biblio/1281024

Shadid, J.N. (2010). Progress on the development of a scalable fully-implicit stabilized unstructured FE capability for resistive MHD [Presentation]. https://www.osti.gov/biblio/1694490

Bartlett, R. (2010). Software Life-cycle and Integration Issues for CS&E R&D Software and Experiences from Trilinos [Conference]. https://www.osti.gov/biblio/1141940

Wolf, M., Boman, E.G., Chevalier, C., & Chevalier, C. (2010). Recent Advances in Two-Dimensional Sparse Matrix Partitioning [Conference]. https://www.osti.gov/biblio/1142253

Cyr, E.C., Shadid, J.N., Pawlowski, R., Tuminaro, R.S., & Tuminaro, R.S. (2010). Block Preconditioners for Fluid Flow and MHD [Conference]. https://www.osti.gov/biblio/1142042

Thompson, A.P. (2010). Parallel Replica Dynamics [Presentation]. https://www.osti.gov/biblio/1694491

Doerfler, D.W., Rajan, M., Vaughan, C.T., & Vaughan, C.T. (2010). Copy of Predicting AMD Magny-Cours Performance for a Suite of NNSA/ASC Applications [Presentation]. https://www.osti.gov/biblio/1694492

Silling, S.A. (2010). A coarsening method for linear peridynamics. International Journal of Multiscale Computational Engineering. https://www.osti.gov/biblio/1114167

Tarman, T.D., Carroll, M.S., Blain, M., Landahl, A.J., & Landahl, A.J. (2010). Quantum Information Sciences Research at Sandia [Presentation]. https://www.osti.gov/biblio/1673497

Ward, H.L. (2010). A brief parallel I/O tutorial. https://doi.org/10.2172/984116

Brown, W., Crozier, P., Plimpton, S.J., & Plimpton, S.J. (2010). Porting LAMMPS to GPUs [Conference]. https://www.osti.gov/biblio/991007

Devine, K., Plimpton, S.J., Bayer, G., Barrett, B., Berry, J., & Berry, J. (2010). Comparing Programming Paradigms for Graph Algorithms [Conference]. https://www.osti.gov/biblio/1141842

Boman, E.G., Devine, K., & Devine, K. (2010). Parallel Partitioning Coloring and Ordering for Scientific Computing [Presentation]. https://doi.org/10.1201/b11644-14

Siefert, C. (2010). Block Preconditioning for Implicit Ocean Models [Presentation]. https://www.osti.gov/biblio/1673505

Thompson, A.P. (2010). NPT Dynamics Minimization and Elastic Constants for Triclinic Cells [Presentation]. https://www.osti.gov/biblio/1695493

Witzel, W., Muller, R.P., Carroll, M.S., & Carroll, M.S. (2010). Coherence of Donor Electron Spins in Isotopically Enriched Silicon [Conference]. https://www.osti.gov/biblio/1124355

Carpenter, J.H. (2010). Xenon equation of state table number 5195 [Presentation]. https://www.osti.gov/biblio/1695495

Gaudioso, J.M. (2010). WMD: The Bio Dimension - Challenges Obligations Opportunities [Conference]. https://www.osti.gov/biblio/1124461

Edwards, H.C. (2010). Performance Concerns for Coupling Hybrid-Parallel Kernels [Conference]. https://www.osti.gov/biblio/1124426

Witzel, W., Muller, R.P., Carroll, M.S., & Carroll, M.S. (2010). Coherence of Donor Electron Spins in Isotopically Enriched Silicon [Conference]. https://www.osti.gov/biblio/1124456

Schmidt, R., Hooper, R., Humphries, L.L., Lorber, A., Spotz, W.F., & Spotz, W.F. (2010). Foundational development of an advanced nuclear reactor integrated safety code. https://doi.org/10.2172/973349

Heroux, M.A. (2010). Enabling Architectures for Large-Scale Applications (Presentation) [Conference]. https://www.osti.gov/biblio/1124347

Dunlavy, D.M. (2010). ParaText: Scalable Text Analysis and Visualization [Conference]. https://www.osti.gov/biblio/1124360

Silling, S.A. (2010). Peridynamic states [Conference]. https://www.osti.gov/biblio/984090

Santarelli, K.R. (2010). A framework for reduced order modeling with mixed moment matching and peak error objectives [Conference]. SIAM Journal on Scientific Computing. https://www.scopus.com/inward/record.uri?partnerID=HzOxMe3b&scp=77950838098&origin=inward

Santarelli, K.R. (2010). A framework for reduced order modeling with mixed moment matching and peak error objectives [Conference]. SIAM Journal on Scientific Computing. https://www.scopus.com/inward/record.uri?partnerID=HzOxMe3b&scp=77957814259&origin=inward

Santarelli, K.R. (2010). A switched state feedback law for the stabilization of LTI systems. Proceedings of the 2010 American Control Conference, ACC 2010. https://doi.org/10.2172/993891

Oldfield, R. (2010). Advanced I/O for large-scale scientific applications. https://doi.org/10.2172/1004371

Oldfield, R. (2010). Lightweight storage and overlay networks for fault tolerance. https://doi.org/10.2172/989384

Ames, A., Sunderland, D., & Sunderland, D. (2010). V&V of Behavioral Models [Conference]. https://www.osti.gov/biblio/1124473

Dunlavy, D.M. (2010). ParaText: Scalable Text Modeling and Analysis [Conference]. https://www.osti.gov/biblio/1124391

Silling, S.A., Lehoucq, R.B., & Lehoucq, R.B. (2010). Peridynamic theory of solid mechanics. Proposed for publication in Advances in Applied Mechanics.. https://www.osti.gov/biblio/984146

Smith, T.M., Collis, S.S., Ober, C.C., Overfelt, J.R., Schwaiger, H.F., & Schwaiger, H.F. (2010). Elastic wave propagation in variable media using a discontinuous Galerkin method [Conference]. Society of Exploration Geophysicists International Exposition and 80th Annual Meeting 2010, SEG 2010. https://www.scopus.com/inward/record.uri?partnerID=HzOxMe3b&scp=84863129013&origin=inward

Lakkaraju, K., Speed, A., & Speed, A. (2010). A cognitive-consistency based model of population wide attitude change [Conference]. AAAI Fall Symposium - Technical Report. https://www.scopus.com/inward/record.uri?partnerID=HzOxMe3b&scp=79960145237&origin=inward

Littlewood, D.J. (2010). Simulation of dynamic fracture using peridynamics, finite element modeling, and contact [Conference]. ASME International Mechanical Engineering Congress and Exposition, Proceedings (IMECE). https://www.scopus.com/inward/record.uri?partnerID=HzOxMe3b&scp=84881406889&origin=inward

Watson, J.-P., Murray, R., Hart, W.E., & Hart, W.E. (2009). Formulation and optimization of robust sensor placement problems for drinking water contamination warning systems. Journal of Infrastructure Systems, 15(4), pp. 330-339. https://doi.org/10.1061/(ASCE)1076-0342(2009)15:4(330)

Paez, T.L., Swiler, L.P., & Swiler, L.P. (2009). Probabilistic methods in model validation [Conference]. Conference Proceedings of the Society for Experimental Mechanics Series. https://www.scopus.com/inward/record.uri?partnerID=HzOxMe3b&scp=84861561278&origin=inward

Mattsson, T., Magyar, R.J., & Magyar, R.J. (2009). Density functional theory (DFT) simulations of shocked liquid xenon [Conference]. AIP Conference Proceedings. https://www.scopus.com/inward/record.uri?partnerID=HzOxMe3b&scp=74949131268&origin=inward

Mattsson, T., Magyar, R.J., & Magyar, R.J. (2009). Density functional theory (DFT) simulations of shocked liquid xenon [Conference]. AIP Conference Proceedings. https://www.scopus.com/inward/record.uri?partnerID=HzOxMe3b&scp=74949131268&origin=inward

Knupp, P. (2009). Label-invariant mesh quality metrics [Conference]. Proceedings of the 18th International Meshing Roundtable, IMR 2009. https://www.scopus.com/inward/record.uri?partnerID=HzOxMe3b&scp=84878199110&origin=inward

Altman, S.J., Clem, P., Cook, A.W., Hart, W.E., Hibbs, M., Ho, C.K., Jones, H.D.T., Sun, A., Webb, S.W., & Webb, S.W. (2009). Analysis of micromixers and biocidal coatings on water-treatment membranes to minimize biofouling. https://doi.org/10.2172/972867

van Bloemen Waanders, B.G., McKenna, S.A., Ray, J., & Ray, J. (2009). multiscale Bayesian inversion of binary permeability fields from static and dynamic observations [Conference]. https://www.osti.gov/biblio/1141480

Collins, M.J. (2009). Traitor-tracing on binary strings. Proposed for publication in Designs, Codes, and Cryptography.. https://www.osti.gov/biblio/972478

Barrett, B., Berry, J., Murphy, R.C., Wheeler, K.B., & Wheeler, K.B. (2009). Implementing a portable multi-threaded graph library: The mtgl on qthreads [Conference]. IPDPS 2009 - Proceedings of the 2009 IEEE International Parallel and Distributed Processing Symposium. https://www.scopus.com/inward/record.uri?partnerID=HzOxMe3b&scp=70450028917&origin=inward

Mitchell, S.A., Bennett, J., Day, D.M., & Day, D.M. (2009). Summary of the CSRI Workshop on Combinatorial Algebraic Topology (CAT): Software, Applications, & Algorithms. https://doi.org/10.2172/1324989

Misra, M., Patel, K., Kaiser, J.N., Meagher, R.J., Branda, S., Schoeniger, J.S., & Schoeniger, J.S. (2009). Host suppression and bioinformatics for sequence-based characterization of unknown pathogens. https://doi.org/10.2172/1000286

Wills, A.E. (2009). The subsystem functional scheme: The Armiento-Mattsson 2005 (AM05) functional and beyond [Conference]. https://www.osti.gov/biblio/1141769

Phipps, E.T., Gay, D.M., Bartlett, R., & Bartlett, R. (2009). Sacado: Automatic Differentiation Tools for C++ Codes [Conference]. https://www.osti.gov/biblio/1141351

Keiter, E., Mei, T., Russo, T.V., Pawlowski, R., Schiek, R.L., Santarelli, K.R., Coffey, T.S., Thornquist, H., & Thornquist, H. (2009). Xyce parallel electronic simulator : users' guide. Version 5.1. https://doi.org/10.2172/1004374

Keiter, E., Mei, T., Russo, T.V., Pawlowski, R., Schiek, R.L., Santarelli, K.R., Coffey, T.S., Thornquist, H., & Thornquist, H. (2009). Xyce™ Parallel Electronic Simulator: Reference Guide, Version 5.1. https://doi.org/10.2172/1324999

Warrender, C. (2009). Understanding Model Experimental and Population Level Variance in Cognitive and Neuron Simulations [Conference]. https://www.osti.gov/biblio/1141552

Bernard, M., Morrow, J.D., Taylor, S.E., Verzi, S.J., Vineyard, C.M., & Vineyard, C.M. (2009). Modeling aspects of human memory for scientific study. https://doi.org/10.2172/986595

Plimpton, S.J., Battaile, C., Chandross, M., Holm, E.A., Thompson, A.P., Tikare, V., Wagner, G.J., Webb, E., Zhou, X., & Zhou, X. (2009). Crossing the mesoscale no-mans land via parallel kinetic Monte Carlo. https://doi.org/10.2172/966942

Doerfler, D.W. (2009). Evaluation of the impact chip multiprocessors have on SNL application performance. https://doi.org/10.2172/973673

Dunlavy, D.M. (2009). Fast Forward: LSAView: A Tool for Visual Exploration of Latent Semantic Modeling [Conference]. https://www.osti.gov/biblio/1141384

Tidwell, V.C., Kobos, P., Malczynski, L.A., Hart, W.E., Castillo, C., & Castillo, C. (2009). Decision support for integrated water-energy planning. https://doi.org/10.2172/976952

Dunlavy, D.M. (2009). LSAView: A Tool for Visual Exploration of Latent Semantic Modeling [Conference]. https://www.osti.gov/biblio/1141529

Leung, V.J. (2009). More Connections Are Not Always Better: Braess-like Paradoxes on a Bipartite Transaction Network [Conference]. https://www.osti.gov/biblio/1141795

Stewart, J. (2009). NEAMS VU Verification Validation Uncertainty Quantification [Conference]. https://www.osti.gov/biblio/1141811

Stewart, J. (2009). Verification Methods and NRC Regulations: A Brief Overview [Conference]. https://www.osti.gov/biblio/1142223

Ferreira, K.B., Oldfield, R., Stearley, J., Laros, J.H., Pedretti, K.T.T., Brightwell, R.B., & Brightwell, R.B. (2009). Increasing fault resiliency in a message-passing environment. https://doi.org/10.2172/1001015

McLendon, W. (2009). Graph algorithms in the titan toolkit. https://doi.org/10.2172/1001014

Skocypec, R. (2009). SOLE_2009_Welch_090729.ppt [Conference]. https://www.osti.gov/biblio/1141332

Schunk, P.R., Lechman, J.B., Grest, G.S., Plimpton, S.J., Grillet, A.M., Brotherton, C.M., & Brotherton, C.M. (2009). Performance of Mesoscale Modeling Methods for Predicting Rheological Properties of charged Polystyrene/Water Suspensions [Conference]. https://www.osti.gov/biblio/1142085

Lehoucq, R.B., Dohrmann, C.R., Segalman, D.J., & Segalman, D.J. (2009). Final report LDRD project 105816 : model reduction of large dynamic systems with localized nonlinearities. https://doi.org/10.2172/992314

Dunlavy, D.M. (2009). A Study of Diversity in Ensemble Models for Classi?cation Problems [Conference]. https://www.osti.gov/biblio/1141555

Knupp, P. (2009). Remarks on Grid Generation Equidistribution and Solution-Adaptation [Conference]. https://www.osti.gov/biblio/1141675

Lin, P.T., Shadid, J.N., Sala, M., Tuminaro, R.S., Hennigan, G., Hoekstra, R.J., & Hoekstra, R.J. (2009). Performance of a parallel algebraic multilevel preconditioner for stabilized finite element semiconductor device modeling. Journal of Computational Physics, 228(17), pp. 6250-6267. https://www.scopus.com/inward/record.uri?partnerID=HzOxMe3b&scp=67650355495&origin=inward

Ames, T., Robinson, A.C., & Robinson, A.C. (2009). A comparison of Lagrangian/Eulerian approaches for tracking the kinematics of high deformation solid motion. https://doi.org/10.2172/984939

Laros, J.H., Kelly, S.M., Levenhagen, M., Pedretti, K.T.T., & Pedretti, K.T.T. (2009). Investigating methods of supporting dynamically linked executables on high performance computing platforms. https://doi.org/10.2172/1035350

Doerfler, D.W., Crozier, P., Edwards, H.C., Williams, A.B., Rajan, M., Keiter, E., Thornquist, H., & Thornquist, H. (2009). Improving performance via mini-applications. https://doi.org/10.2172/993908

Kolda, T.G., Acar Ataman, E.N., Dunlavy, D.M., & Dunlavy, D.M. (2009). Link Prediction on Evolving Data using Matrix and Tensor Factorizations [Conference]. https://www.osti.gov/biblio/1141980

Eldred, M., Swiler, L.P., & Swiler, L.P. (2009). Efficient algorithms for mixed aleatory-epistemic uncertainty quantification with application to radiation-hardened electronics. Part I, algorithms and benchmark results. https://doi.org/10.2172/972887

Vugrin, E., Camphouse, R., Sunderland, D., & Sunderland, D. (2009). Quantitative resilience analysis through control design. https://doi.org/10.2172/993905

Hemmert, K.S. (2009). Toward improved branch prediction through data mining. https://doi.org/10.2172/993886

Ice, L., Fabian, N., Moreland, K., Bennett, J., Thompson, D., Karelitz, D.B., & Karelitz, D.B. (2009). Scalable analysis tools for sensitivity analysis and UQ (3160) results. https://doi.org/10.2172/972889

Siefert, C., Robinson, A.C., & Robinson, A.C. (2009). A fully implicit method for 3D quasi-steady state magnetic advection-diffusion. https://doi.org/10.2172/993878

Rothganger, F. (2009). Information in Living Systems [Presentation]. https://www.osti.gov/biblio/1695586

Siefert, C., Tuminaro, R.S., Domino, S.P., Robinson, A.C., & Robinson, A.C. (2009). Highly scalable linear solvers on thousands of processors. https://doi.org/10.2172/993900

Moreland, K. (2009). Large Scale Visualization with ParaView (SC09 slides) [Presentation]. https://www.osti.gov/biblio/1695587

Fan, H., Forsythe, J.C., Branda, C., Warrender, C., Schiek, R.L., & Schiek, R.L. (2009). Neural assembly models derived through nano-scale measurements. https://doi.org/10.2172/993899