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Bruce Palmer

High Performance Computing
Scientist
Pacific Northwest National Laboratory
PO Box 999
MSIN: J4-30
Richland, WA 99352

PNNL Publications

2013

  • Bandara DMUC, AM Tartakovsky, M Oostrom, BJ Palmer, JW Grate, and C Zhang. 2013. "Smoothed Particle Hydrodynamics pore-scale simulations of unstable immiscible flow in porous media." Advances in Water Resources 62(Part C):356-369.  doi:10.1016/j.advwatres.2013.09.014
  • Palmer BJ, WA Perkins, KA Glass, Y Chen, S Jin, and CD Callahan, II. 2013. "GridPACK Toolkit for Developing Power Grid Simulations on High Performance Computing Platforms." In Proceedings of the 3rd International Workshop on High Performance Computing, Networking, and Analytics for the Power Grid (HiPCNA-PG '13), November 17-21, 2013, Denver, Colorado, p. Article No. 3.  ACM, New York, NY.  doi:10.1145/2536780.2536782
  • Scheibe TD, Z Hou, BJ Palmer, and AM Tartakovsky. 2013. "Pore-Scale Simulation of Intragranular Diffusion: Effects of Incomplete Mixing on Macroscopic Manifestations." Water Resources Research 49(7):4277-4294.  doi:10.1002/wrcr.20333

2012

  • Vishnu A, JA Daily, and BJ Palmer. 2012. "Designing Scalable PGAS Communication Subsystems on Cray Gemini Interconnect." In 19th International Conference on High Performance Computing (HiPC), December 18-22, 2012, Pune, India.  Institute of Electrical and Electronics Engineers , Piscataway, NJ.  doi:10.1109/HiPC.2012.6507506

2011

  • Agarwal K, JM Chase, KL Schuchardt, TD Scheibe, BJ Palmer, and TO Elsethagen. 2011. "Design and Implementation of "Many Parallel Task" Hybrid Subsurface Model." In MTAGS '11: Proceedings of the 2011 ACM International Workshop on Many Task Computing on Grids and Supercomputers, November 12-18, 2011, Seattle, Washington, pp. 25-32.  Association for Computing Machinery, New York, NY.  doi:10.1145/2132876.2132884
  • Palmer BJ, AS Koontz, KL Schuchardt, RP Heikes, and DA Randall. 2011. "Efficient data IO for a Parallel Global Cloud Resolving Model." Environmental Modelling & Software 26(12):1725-1735.  doi:10.1016/j.envsoft.2011.08.007
  • Bandara UC, AM Tartakovsky, and BJ Palmer. 2011. "Pore-scale study of capillary trapping mechanism during CO2 injection in geological formations." International Journal of Greenhouse Gas Control 5(6):1566-1577.  doi:10.1016/j.ijggc.2011.08.014
  • Scheibe TD, AM Tartakovsky, UC Bandara, BJ Palmer, M Oostrom, C Zhang, and A Bonneville. 2011. "Physical and Numerical Models of Pore-Scale Trapping of CO2." In Les Rencontres Scientifiques d'IFP Energies Nouvelles: International Conference on Flows and Mechanics in Natural Porous Media from Pore to Field Scale - Pore2Field, November 16-18, 2011, Rueil-Malmaison, France.  IFP Energies Nouvelles, Paris, France. 

2010

  • Daily JA, KL Schuchardt, and BJ Palmer. 2010. "Efficient Extraction of Regional Subsets from Massive Climate Datasets using Parallel IO." In American Geophysical Union, Fall Meeting 2010, pp. Paper No. IN41A-1360.  American Geophysical Union, Washington DC. 
  • Gurumoorthi V, AM Tartakovsky, TD Scheibe, and BJ Palmer. 2010. "A Component-Based Framework for Smoothed Particle Hydrodynamics Simulations of Reactive Fluid Flow in Porous Media. ." International Journal of High Performance Computing Applications 24(2):228-239.  doi:10.1177/1094342009358415
  • Scheibe TD, BJ Palmer, KL Schuchardt, Y Fang, and AM Tartakovsky. 2010. "Simulations of Subsurface Flow and Transport at the Pore and Continuum Scales." In SciDAC 2010 Scientific Discovery Through Advanced Computing, July 11-15, 2010, Chattanooga, Tennessee.  US Department of Energy, Office of Science, Washington DC. 

2009

  • Gurumoorthi V, MK Krishnan, Y Fang, BJ Palmer, and D Chavarría-Miranda. 2009. "Multiple Component Multiple Data Programming in Subsurface Simulations: The CCA Approach." In Proceedings of the Workshop on Component-Based High Performance Computing (CBHPC 2009).  ACM Press, New York, NY. 
  • Palmer BJ, Y Fang, V Gurumoorthi, GE Hammond, JA Fort, and TD Scheibe. 2009. "Developing a Component-Based Framework for Subsurface Simulation using the Common Component Architecture." In SciDAC 2009: Journal of Physics: Conference Series , vol. 180, no. 1, p. Paper No. 012064.  IOP Publishing, London, United Kingdom.  doi:10.1088/1742-6596/180/1/012064
  • Schuchardt KL, JM Chase, JA Daily, TO Elsethagen, BJ Palmer, and TD Scheibe. 2009. "Application of SALSSA Framework to the Validation of Smoothed Particle Hydrodynamics Simulations of Low Reynolds Number Flows." Journal of Physics: Conference Series 180(1):Article No. 012065.  doi:10.1088/1742-6596/180/1/012065

2008

  • Kathmann SM, BJ Palmer, GK Schenter, and BC Garrett. 2008. "Activation Energies and Potentials of Mean Force for Water Cluster Evaporation." Journal of Chemical Physics 128(6):Art. No. 064306.  doi:10.1063/1.2837282
  • Scheibe TD, AM Tartakovsky, DM Tartakovsky, GD Redden, P Meakin, BJ Palmer, and KL Schuchardt. 2008. "Hybrid numerical methods for multiscale simulations of subsurface biogeochemical processes." In Proceedings of SciDAC 2008: Journal of Physics, vol. 125, p. 012054.  IOP Publishers, Bristol, United Kingdom.  doi:10.1088/1742-6596/125/1/012054

2007

  • Palmer BJ, SM Kathmann, MK Krishnan, V Tipparaju, and J Nieplocha. 2007. "The Use of Processor Groups in Molecular Dynamics Simulations to Sample Free-Energy States." Journal of Chemical Theory and Computation 3(2):583-592.  doi:10.1021/ct600260u
  • Palmer BJ, Y Fang, GE Hammond, and V Gurumoorthi. 2007. "Component-Based Framework for Subsurface Simulations." In SciDAC 2007. Published in Journal of Physics: Conference Series, vol. 78, p. 012056 (5 pages).  IOP Publishing, Bristol, United Kingdom.  doi:10.1088/1742-6596/78/1/012056
  • Schuchardt KL, BJ Palmer, J Daily, TO Elsethagen, and AS Koontz. 2007. "IO strategies and data services for petascale data sets from a global cloud resolving model." Journal of Physics: Conference Series 78:Art. No. 012089.  doi:10.1088/1742-6596/78/1/012089
  • Tipparaju V, MK Krishnan, BJ Palmer, F Petrini, and J Nieplocha. 2007. "Towards Fault Resilient Global Arrays." In Parallel Computing: Architectures, Algorithms and Applications: NIC Series, vol. 38, pp. 339-345.  John von Neumann Institute for Computing, Julich, Germany. 

2006

  • Nieplocha J, BJ Palmer, V Tipparaju, MK Krishnan, HE Trease, and E Apra. 2006. "Advances, Applications and Performance of the Global Arrays Shared Memory Programming Toolkit." International Journal of High Performance Computing Applications 20(2):203-231. 
  • Wang W, LQ Wang, BJ Palmer, GJ Exarhos, and AD Li. 2006. "Cyclization and Catenation Directed by Molecular Self-Assembly." Journal of the American Chemical Society 128(34):11150-11159. 

2005

  • Gdanitz J, GD Black, CS Lansing, BJ Palmer, and EF Schuchart. 2005. " Registering the Amica Electronic Structure Code in the Extensible Computational Chemistry Environment." Journal of Computational Chemistry 26(3):214-225. 
  • Nieplocha J, MK Krishnan, BJ Palmer, V Tipparaju, and Y Zhang. 2005. "Exploiting Processor Groups to Extend Scalability of the GA Shared Memory Programming Model." In Proceedings of the 2nd Conference on Computing Frontiers, May 4-6, Ischia, Italy, pp. 262 - 272.  Association for Computing Machinery, New York, NY.  doi:10.1145/1062261.1062305

2004

  • Palmer BJ, and DR Rector. 2004. "Erratum: Lattice-Boltzmann algorithm for simulating thermal two-phase flow [ Phys. Rev. E 61, 5295 (2000) ]." Physical Review. E, Statistical Physics, Plasmas, Fluids, and Related Interdisciplinary Topics 69(4):Article no: 049903 .  doi:10.1103/PhysRevE.69.049903

2003

  • Black GD, KL Schuchardt, DK Gracio, and BJ Palmer. 2003. "The Extensible Computational Chemistry Environment: A Problem Solving Environment for High Performance Theoretical Chemistry." In 3rd International Conference on Computational Science - ICCS 2003, Saint Petersburg, Russian Federation and Melbourne, Australia; Lecture notes in computer science, vol. 2660, ed. Sloot, P. , pp. 122-131.  Springer, Berlin, Germany. 

2002

2001

  • Fulton JL, MM Hoffman, JG Darab, BJ Palmer, and EA Stern. 2001. "Ion Hydration and Ion-Pair Formation in Water." In Advanced Photon Source Forefront 1, ANL/APS/TB-42, pp. 83-85.  Argonne National Laboratory, Argonne, IL. 
  • Yonker CR, and BJ Palmer. 2001. "Investigation of CO2-Fluorine Interactions through the Intermolecular Effects on theH-1and F-19 Shielding of CH3F and CHF3 at Various Temperatures and Pressures." Journal of Physical Chemistry A 105(2):308-314. 

2000

  • Palmer BJ, and DR Rector. 2000. "Lattice Boltzmann Algorithm for Simulating Thermal Flow in Compressible Fluids." Journal of Computational Physics 161(1):1-20. 
  • Palmer BJ, and DR Rector. 2000. "Lattice-Boltzmann Algorithm for Simulating Thermal Two-Phase Flow." Physical Review. E, Statistical Physics, Plasmas, Fluids, and Related Interdisciplinary Topics 61(5):5295-5306. 
  • Fulton JL, MM Hoffmann, JG Darab, BJ Palmer, and EA Stern. 2000. "Copper(I) and Copper(II) Coordination Structure under Hydrothermal Conditions at 325 degrees C: An X-ray Absorption Fine Structure and Molecular Dynamics Study." Journal of Physical Chemistry A 104(49):11651-11663. 

1999

  • Palmer BJ, J Liu, and JW Virden. 1999. "Simulations of the Effect of Diblock Surfactant Spacer Molecules on Micelle Structure and Function." Langmuir 15(22):7426-7431. 
  • Hoffmann MM, JG Darab, BJ Palmer, and JL Fulton. 1999. "A Transition in the Ni2+ Complex Structure from Six-to Four- Coordinate upon Formation of Ion Pair Species in Supercritical Water: An X-ray Absorption Fine Structure, Near-infrared, and Molecular Dynamics Study." Journal of Physical Chemistry A 103(42):8471-8482. 

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