Publications

Lofstead, G.F. (2013). Efficient Transactions for Parallel Data Movement [Conference]. https://www.osti.gov/biblio/1106729

Ferreira, K.B. (2013). Checkpoint Compression: Its Limitations and Comparisons with other Optimizations [Conference]. https://www.osti.gov/biblio/1120837

Lofstead, G.F. (2013). Insights for Exascale IO APIs from Building a Petascale IO API [Conference]. https://www.osti.gov/biblio/1120889

Hammond, S. (2013). The Path to Exascale Experiences porEng and debugging for Intel Xeon Phi [Presentation]. https://www.osti.gov/biblio/1673855

Oldfield, R., Ward, H.L., Widener, P., Kroeger, T., Curry, M.L., & Curry, M.L. (2013). Fourier-Assisted Modeling of Hard Disk Drive Access Times [Conference]. https://www.osti.gov/biblio/1113323

Salinger, A.G., Ostien, J.T., Pawlowski, R., Phipps, E.T., Sun, W., Gao, X., Hansen, G., Tezaur, I.K., Mota, A., Muller, R.P., Nielsen, E., & Nielsen, E. (2013). Albany: A Component-Based Partial Differential Equation Code Built on Trilinos. ACM Transaction on Mathematical Software. https://www.osti.gov/biblio/1113351

Curry, M.L., Ward, H.L., & Ward, H.L. (2013). Redundant Array of Inexpensive Interactive Disks (RAI^2D) [Conference]. https://www.osti.gov/biblio/1095520

Trott, C.R., Hammond, S., Kelly, S.M., Laros, J.H., Ang, J.A., & Ang, J.A. (2013). Performance on Advanced Systems Test Beds [Presentation]. https://www.osti.gov/biblio/1673264

Jacobson, N.T., Nguyen, K., Lilly, M.P., Bishop, N.C., Nielsen, E., Wendt, J.R., Dominguez, J., Pluym, T., Carroll, M.S., & Carroll, M.S. (2013). Spontaneous emission spectrum of a diabatically pulsed silicon charge qubit. Nature Physics. https://www.osti.gov/biblio/1143830

Wildey, T., Shadid, J.N., Cyr, E.C., & Cyr, E.C. (2013). Adjoint-Based Error Analysis for Stabilized Formulations and IMEX Schemes [Conference]. https://www.osti.gov/biblio/1140447

Shadid, J.N. (2013). On the Development of a Scalable Fully-implicit Stabilized Unstructured FE Capability for Resistive MHD with Integrated Adjoint Error-Estimation [Conference]. https://www.osti.gov/biblio/1095830

Tezaur, I.K., van Bloemen Waanders, B.G., Arunajatesan, S., Barone, M., & Barone, M. (2013). Stabilization of Projection-Based Reduced Order Models via Eigenvalue Reassignment. Computer Methods in Applied Mechanics and Engineering. https://www.osti.gov/biblio/1095826

Plimpton, S.J., Lane, J.M.D., Lechman, J.B., & Lechman, J.B. (2013). 4: Hands-on #1 - LAMMPS example scripts [Conference]. https://www.osti.gov/biblio/1095828

Plimpton, S.J. (2013). 3: Getting Started with LAMMPS [Conference]. https://www.osti.gov/biblio/1095813

Plimpton, S.J. (2013). 1: Overview of Molecular/Particulate Dynamics [Conference]. https://www.osti.gov/biblio/1095817

Plimpton, S.J. (2013). 8: Modifying LAMMPS [Conference]. https://www.osti.gov/biblio/1095818

Moreland, K. (2013). Comparing GPU Parallel Search Structures Using DAX [Presentation]. https://www.osti.gov/biblio/1673269

Hart, W.E., Phillips, C.A., & Phillips, C.A. (2013). PEBBL: An object-oriented framework for scalable parallel branch and bound. Mathematical Programming Computation. https://www.osti.gov/biblio/1095816

Bond, S.D., Baczewski, A.D., & Baczewski, A.D. (2013). Numerical methods for the Extended Variable Generalized Langevin Equation [Conference]. https://www.osti.gov/biblio/1095832

Schultz, P.A. (2013). Defect reaction network in Si-doped InP : numerical predictions. https://doi.org/10.2172/1096486

Shadid, J.N., Pawlowski, R., Cyr, E.C., Wildey, T., Weber, P.D., & Weber, P.D. (2013). Drekar::CFD-A Trilinos Component-Based Software Flow Solver [Conference]. https://www.osti.gov/biblio/1296709

Landahl, A.J. (2013). PRA/quant-ph submission: Complex instruction set computing architecture for performing accurate quantum Z rotations with less magic. Physical Review A; also posting to www.arxiv.org. https://www.osti.gov/biblio/1095834

Moreland, K. (2013). Upcoming Challenges for Scientific Visualization Software (Vis 2013 Panel) [Presentation]. https://www.osti.gov/biblio/1673284

Ray, J., van Bloemen Waanders, B.G., & van Bloemen Waanders, B.G. (2013). A multiresolution spatial parameterization for the estimation of fossil-fuel carbon dioxide emissions via atmospheric inversions. Atmospheric Chemistry and Physics. https://www.osti.gov/biblio/1114616

Thompson, A.P., Shan, T., & Shan, T. (2013). Reactive atomistic simulations of shock-induced initiation processes in mixtures of ammonium nitrate and fuel oil [Conference]. https://doi.org/10.1088/1742-6596/500/5/052046

Boman, E.G., Devine, K., Lehoucq, R.B., & Lehoucq, R.B. (2013). A computational spectral graph theory tutorial [Conference]. https://www.osti.gov/biblio/1295693

Oldfield, R., Fabian, N., Moreland, K., & Moreland, K. (2013). Productivity Challenges for Integrating Simulation and Analysis [Conference]. https://www.osti.gov/biblio/1115121

Fuller, T.J. (2013). Update Features of the Kayenta Model [Presentation]. https://www.osti.gov/biblio/1673512

Agelastos, A.M., Lin, P.T., & Lin, P.T. (2013). Simulation information regarding Sandia National Laboratories trinity capability improvement metric. https://doi.org/10.2172/1104749

Heroux, M.A. (2013). HPCG Benchmark Technical Specification. https://doi.org/10.2172/1113870

Lofstead, G.F. (2013). Efficient Transactions for Parallel Data Movement [Conference]. https://www.osti.gov/biblio/1114632

Moussa, J.E. (2013). Comment on %22Adiabatic Quantum Algorithm for Search Engine Ranking%22. Physical Review Letters. https://www.osti.gov/biblio/1114646

Wixom, R.R., Wills, A.E., & Wills, A.E. (2013). Development of ab initio techniques critical for future science-based explosives R&D. https://doi.org/10.2172/1115273

Oldfield, R. (2013). Dynamic File Striping and Data Layout Transformation on Parallel System with Fluctuating I/O Workload [Conference]. https://www.osti.gov/biblio/1115086

Oldfield, R., Fabian, N., Moreland, K., & Moreland, K. (2013). Extreme-Scale CoProcessing: An Evaluation of In Situ and In Transit Analysis [Conference]. https://www.osti.gov/biblio/1115092

Blume-Kohout, R.J., Gamble, J.K., Nielsen, E., Mizrahi, J.A., Sterk, J.D., Maunz, P.L.W., & Maunz, P.L.W. (2013). Robust self-consistent closed-form tomography of quantum logic gates on a trapped ion qubit. Nature Physics. https://www.osti.gov/biblio/1114387

Crossno, P.J. (2013). CEA/Tri-Lab Visualization Update [Presentation]. https://www.osti.gov/biblio/1673551

Torczynski, J.R., Romero, L., O'Hern, T.J., & O'Hern, T.J. (2013). Motion of a Bellows and a Free Surface in a Closed Vibrated Liquid-Filled Container [Presentation]. https://www.osti.gov/biblio/1673549

Kelly, S.M., Laros, J.H., Vaughan, C.T., & Vaughan, C.T. (2013). An Evaluation of BitTorrent's Performance In HPC Enviroments [Conference]. https://www.osti.gov/biblio/1115054

Jayaraj, J. (2013). CFD Builder: A Library Builder for Computational Fluid Dynamics [Conference]. https://www.osti.gov/biblio/1115156

Moore, S.G., Crozier, P., Moore, C.H., Bettencourt, M.T., Hopkins, M.M., & Hopkins, M.M. (2013). Automatic Coarsening of the Particle Interaction Mesh in a Hybrid PIC-DSMC Simulation [Conference]. https://www.osti.gov/biblio/1115116

Rajamanickam, S., Leung, V.J., Pedretti, K., Olivier, S.L., Devine, K., & Devine, K. (2013). Exploiting Geometric Partitioning in Task Mapping for Parallel Computers [Conference]. https://www.osti.gov/biblio/1115106

Ferreira, K.B., Levy, S.L.N., & Levy, S.L.N. (2013). Predicting Coordinated and Uncoordinated Checkpoint/Restart Protocol Performance at Extreme Scales [Conference]. https://www.osti.gov/biblio/1115087

Aimone, J.B. (2013). Computational modeling of human adult neurogenesis - information theoretic analysis of biologically realistic dentate gyrus networks [Presentation]. https://www.osti.gov/biblio/1732177

Brightwell, R.B. (2013). Design and Evaluation of FA-MPI A Transactional Fault-Tolerant MPI [Conference]. https://www.osti.gov/biblio/1115330

Brightwell, R.B. (2013). A Transactional Model for Fault-Tolerant MPI for Petascale and Exascale Systems [Presentation]. https://www.osti.gov/biblio/1673636

Hart, W.E., Phillips, C.A., & Phillips, C.A. (2013). Highly-scalable branch and bound for maximum monomial agreement [Conference]. https://www.osti.gov/biblio/1115716

Ebeida, M., English, S.A., & English, S.A. (2013). Tuning the Discrete Density of a Random Disk Packing by Injection and Ejection [Conference]. https://www.osti.gov/biblio/1115712

Ebeida, M. (2013). Delaunay Quadrangulation via Poisson Disk Sampling [Conference]. https://www.osti.gov/biblio/1115644

Siirola, J.D., Hart, W.E., Watson, J., & Watson, J. (2013). Recent developents in Coopr [Conference]. https://www.osti.gov/biblio/1115654

Voth, T.E., Robbins, J., & Robbins, J. (2013). Multi-resolution modeling of the dynamic loading of metal matrix composites [Conference]. https://www.osti.gov/biblio/1115648

Debenedictis, E. (2013). US SCE capability relative to roadmap (comments) [Conference]. https://www.osti.gov/biblio/1116128

Moore, C.H., Hopkins, M.M., Boerner, J., Crozier, P., Moore, S.G., & Moore, S.G. (2013). Paschen Concepts in Non-Uniform Gas [Conference]. https://www.osti.gov/biblio/1116426

Hopkins, M.M., Boerner, J., Moore, C.H., Crozier, P., Moore, S.G., Bettencourt, M.T., Hooper, R., & Hooper, R. (2013). Computational Efficiency for Kinetic Simulation of Vacuum Arcs [Conference]. https://www.osti.gov/biblio/1116438

Barrett, B. (2013). System Software Advances for Data Analytics (and Physics) [Conference]. https://www.osti.gov/biblio/1116442

Plimpton, S.J. (2013). Developing Community Codes for Materials Modeling. Current Opinion in Solid State and Materials Science, 17(6). https://doi.org/10.1016/j.cossms.2013.09.005

Heroux, M.A. (2013). Building the Next Generation of Parallel and Resilient Applications and Libraries [Conference]. https://www.osti.gov/biblio/1116596

Moreland, K. (2013). The ParaView Tutorial Slides (Version 4.1) [Presentation]. https://www.osti.gov/biblio/1673662

Edwards, H.C., Trott, C.R., Sunderland, D., & Sunderland, D. (2013). Kokkos Tutorial:A Trilinos package for manycore performance portability [Presentation]. https://www.osti.gov/biblio/1673666

Romero, V., Swiler, L.P., Urbina, A., & Urbina, A. (2013). A comparison of methods for representing sparsely sampled random quantities. https://doi.org/10.2172/1096268

Mitchell, J.A., Fuller, T.J., & Fuller, T.J. (2013). Nonlinear kinematics for piezoelectricity in ALEGRA-EMMA. https://doi.org/10.2172/1096508

Blume-Kohout, R.J., Young, K.C., & Young, K.C. (2013). Mitigating faults from Hamiltonian imprecision in analog quantum information processing. Physical Review. https://www.osti.gov/biblio/1108795

Perego, M., Salinger, A.G., & Salinger, A.G. (2013). Modeling icesheets dynamics: forward and inverse problems [Conference]. https://www.osti.gov/biblio/1115048

Shan, T., Thompson, A.P., Plimpton, S.J., & Plimpton, S.J. (2013). Large-scale Molecular Dynamics Simulations with LAMMPS [Conference]. https://www.osti.gov/biblio/1115164

Moreland, K. (2013). A Classification of Scientific Visualization Algorithms for Massive Threading [Conference]. https://www.osti.gov/biblio/1109056

Grant, R., Ferreira, K.B., & Ferreira, K.B. (2013). Evaluating Energy Savings for Checkpoint/Restart [Conference]. https://www.osti.gov/biblio/1109412

Robinson, A.C. (2013). Lagrangian/Eulerian Multiphysics Modeling and deRham Complex Based Algorithms [Conference]. https://www.osti.gov/biblio/1115045

Levy, S.L.N., Ferreira, K.B., Widener, P., & Widener, P. (2013). Using Simulation to Evaluate the Performance of Resilience Strategies at Scale [Conference]. https://doi.org/10.1007/978-3-319-10214-6_5

Ferreira, K.B. (2013). Event Correlation and Failure Prediction in HPC clusters [Conference]. https://www.osti.gov/biblio/1110632

Hjalmarson, H.P., Kensek, R.P., Magyar, R.J., Bondi, R.J., & Bondi, R.J. (2013). Low Energy Radiation Transport Applied to Secondary Electron Emission [Conference]. https://www.osti.gov/biblio/1110690

Ray, J., Lee, J., Lefantzi, S., van Bloemen Waanders, B.G., & van Bloemen Waanders, B.G. (2013). Kalman-filtered compressive sensing for high resolution estimation of anthropogenic greenhouse gas emissions from sparse measurements. https://doi.org/10.2172/1096253

Grant, R. (2013). Scalable Network Communication using Unreliable RDMA [Presentation]. https://doi.org/10.1007/978-1-4939-2092-1_12

Moreland, K. (2013). Dax Quad Chart (Fall 2013) [Presentation]. https://www.osti.gov/biblio/1671986

Pribram-Jones, A., Desjarlais, M.P., & Desjarlais, M.P. (2013). Aluminum Release Isentropes from Quantum Molecular Dynamics Simulations [Presentation]. https://www.osti.gov/biblio/1671992

Moreland, K. (2013). Dax One Page Overview (Fall 2013) [Presentation]. https://www.osti.gov/biblio/1671991

Aimone, J.B., Warrender, C., Trumbo, D., & Trumbo, D. (2013). Neurons to algorithms LDRD final report. https://doi.org/10.2172/1096471

Desjarlais, M.P., Thompson, A.P., Brennecka, G., Marinella, M., & Marinella, M. (2013). Electrical conductivity in oxygen-deficient phases of transition metal oxides from first-principles calculations. https://doi.org/10.2172/1096251

Robinson, A.C., Petney, S., Drake, R.R., Weirs, G., Adams, B.M., Vigil, D., Carpenter, J.H., Garasi, C.J., Wong, M.K., Robbins, J., Siefert, C., Strack, O.E., Wills, A.E., Trucano, T.G., Bochev, P., Summers, R.M., Stewart, J., Ober, C.C., Rider, W., … Niederhaus, J.H.J. (2013). ALEGRA Update: Modernization and Resilience Progress [Conference]. https://www.osti.gov/biblio/1115141

Rider, W., Kelly, S.M., Barrett, R.F., Hammond, S., & Hammond, S. (2013). I don't wanna grow up... stuck at predictive capability maturity model level zero! [Conference]. https://www.osti.gov/biblio/1115138

Swiler, L.P. (2013). Sensitivity Analyses using BISON [Conference]. https://www.osti.gov/biblio/1115040

Devine, K., Boman, E.G., Rajamanickam, S., Leung, V.J., & Leung, V.J. (2013). The Zoltan Toolkits: Parallel Partitioning Load Balancing Coloring and Ordering [Presentation]. https://www.osti.gov/biblio/1673208

Moore, S.G., Crozier, P., Moore, C.H., Bettencourt, M.T., Hopkins, M.M., & Hopkins, M.M. (2013). Automatic Coarsening of the Particle Interaction Mesh in a Hybrid PIC-DSMC Simulation [Conference]. https://www.osti.gov/biblio/1111367

Tezaur, I.K., van Bloemen Waanders, B.G., Arunajatesan, S., Barone, M., & Barone, M. (2013). Stabilization of Projection-Based Reduced Order Models via Optimization-Based Eigenvalue Reassignment. CMAME. https://www.osti.gov/biblio/1111386

Hills, R.G., Witkowski, W., Rider, W., Trucano, T.G., Urbina, A., & Urbina, A. (2013). Development of a fourth generation predictive capability maturity model. https://doi.org/10.2172/1096515

Lin, P.T. (2013). Next generation solver stack for the simulation of the abnormal thermal fire environment for stockpile stewardship [Presentation]. https://www.osti.gov/biblio/1673228

Noble, D.R., Sjaardema, G.D., Clausen, J., Thomas, J.D., Foucar, J.G., Franko, K., Heinstein, M., Williams, A.B., Miller, J.D., & Miller, J.D. (2013). Sierra Transition Team Sprint Review 4.29-8 [Presentation]. https://www.osti.gov/biblio/1673232

Trott, C.R. (2013). Kokkos: Enabling Manycore Performance Portable Applications and Libraries [Presentation]. https://www.osti.gov/biblio/1673234

Kensek, R.P., Hjalmarson, H.P., Magyar, R.J., Bondi, R.J., & Bondi, R.J. (2013). LDRD project 151362 : low energy electron-photon transport. https://doi.org/10.2172/1096488

Lin, P.T. (2013). Copy of Enabling Extreme-Scale Simulations with Next-Generation Trilinos: Low Mach Fluid Case Study [Conference]. https://www.osti.gov/biblio/1113075

Edwards, H.C., Trott, C.R., Sunderland, D., & Sunderland, D. (2013). Extended abstract for "Kokkos a Manycore Device Performance Portability Library for C++ HPC Applications" [Presentation]. https://www.osti.gov/biblio/1673240

Moreland, K. (2013). Dax: A Toolkit for Visualization at Extreme Scale (Poster ASCR Extreme Scale PI Meeting Fall 2013) [Presentation]. https://www.osti.gov/biblio/1673221

Bochev, P., Ridzal, D., Peterson, K., & Peterson, K. (2013). Perspectives on preservation of physical properties through optimization [Presentation]. https://www.osti.gov/biblio/1673222

Bochev, P. (2013). Development of an Optimization-Based Atomistic-to-Continuum Coupling Method [Conference]. https://www.osti.gov/biblio/1113074

Carr, R.D. (2013). Symmetric Linear Programming Formulations for Minimum Cut with Applications to TSP [Conference]. https://www.osti.gov/biblio/1113151

Swiler, L.P. (2013). DAKOTA reliability methods applied to RAVEN/RELAP-7. https://doi.org/10.2172/1096510

Shead, T.M., Dunlavy, D.M., & Dunlavy, D.M. (2013). Network and Ensemble Enabled Entity Extraction in Informal Text (NEEEEIT) final report. https://doi.org/10.2172/1115263

Shadid, J.N., Lin, P.T., & Lin, P.T. (2013). Extremescale preconditioners for fullycoupled magnetohydrodynamics [Conference]. https://www.osti.gov/biblio/1296812

Hendrickson, B.A. (2013). Graph Partitioning For Nested Dissection:An Historical Perspective [Conference]. https://www.osti.gov/biblio/1106859

Hammond, S., Barrett, R.F., Vaughan, C.T., Trott, C.R., Laros, J.H., Kelly, S.M., Ang, J.A., & Ang, J.A. (2013). NNSA/ASC Test Bed Update [Presentation]. https://www.osti.gov/biblio/1664732

Lehoucq, R.B. (2013). Analysis and approximation of a finite-range jump process [Conference]. https://www.osti.gov/biblio/1106321