2012 Publications
J. Dinan, P. Balaji, J. R. Hammond, Sriram Krishnamoorthy, and V. Tipparaju, "Supporting the Global Arrays PGAS Model Using MPI One-Sided Communication," Proc. 26th Intl. Parallel and Distributed Processing Symp. (IPDPS), 2012. Also Preprint ANL/MCS-P1878-0411, October 2012. [pdf]
R. Jain and T. Tautges, "RGG: Reactor Geometry (&mesh) Generator," Preprint ANL/MCS-P2005-0612, June 2012. [pdf]
T. Peterka, J. Kwan, A. Pope, H. Finkel, K. Heitmann, S. Habib, "Meshing the Universe: Identifying Voids in Cosmological Simulations Through in Situ Parallel Voronoi Tessellation," Preprint ANL/MCS-P2087-0512, May 2012. [pdf]
Z. Insepov and R. J. Miller, "Activation of Nanoflows for Fuel Cells," Preprint ANL/MCS-P2081-0512, May 2012. [pdf]
T. Peterka and R. Ross, "Versatile Communication Algorithms for Data Analysis," Preprint ANL/MCS-P2080-0512, May 2012. [pdf]
B. Adams, Z. Insepov, J. Norem, "Simulations of Fast X-Ray Detectors Based on Multichannel Plates," Preprint ANL/MCS-P2090-0512, May 2012. [pdf]
F. X. Giraldo, J. F. Kelly, E. M. Constantinescu, "Implicit-Explicit Formulations of a Three-Dimensional Nonhydrostatic Unified Model of the Atmosphere (NUMA)," Preprint ANL/MCS-P2083-0512, May 2012. [pdf]
Y. Peng, C. Knight, P. Blood, L. Crosby, G. A. Voth, "Extending Parallel Scalability of LAMMPS and Multiscale Reactive Molecular Simulations," Preprint ANL/MCS-P2085-0512, May 2012. [pdf]
J. Chen, "On Use of Discrete Laplace Operator for Preconditioning Kernel Matrices," Preprint ANL/MCS-P2076-0412, April 2012. [pdf]
M. Lubin, J. A. Julian Hall, C. G. Petra, M. Anitescu, "Parallel Distributed-Memory Simplex for Large-Scale Stochastic LP Problems," Preprint ANL/MCS-P2075-0412, April 2012. [pdf]
O. Roderick, M. Anitescu, Z. Wang, "Reduced Order Approximations in Uncertainty Analysis of Nuclear Engineering Applications," Preprint ANL/MCS-P2078-0412, April 2012. [pdf]
A. Mahajan, S. Leyffer, C. Kirches, "Solving Mixed-Integer Nonlinear Programs by QP-Diving," Preprint ANL/MCS-P2071-0312, March 2012. [pdf]
T. J. Tautges, J. A. Kraftcheck, N. Bertram, V. Sachdeva, and J. Magerlein, "Mesh Interface Resolution and Ghost Exchange in a Parallel Mesh Representation," Preprint ANL/MCS-P2058-0312, March 2012. [pdf]
V. M. Zavala, "Real-Time Resolution of Conflicting Objectives in Building Energy Management: An Utopia-Tracking Approach," Preprint ANL/MCS-P2056-0312, March 2012. [pdf]
J. M. Wozniak, T. G. Armstrong, K. Maheshwari, E. L. Lusk, D. S. Katz, M. Wilde, I. T. Foster, "Turbine: A Distributed-Memory Dataflow Engine for Extreme-Scale Many-Task Applications," Preprint ANL/MCS-P2057-0312, March 2012. [pdf]
B. Smith, L. C. McInnes, E. Constantinescu, M. Adams, S. Balay, J. Brown, M. Knepley, H. Zhang, "PETSc's Software Strategy for the Design Space of Composable Extreme-Scale Solvers," Preprint ANL/MCS-P2059-0312, March 2012. [pdf]
J. W. Larson, "Visualizing Climate Variability with Time-Dependent Probability Density Functions, Detecting it with Information Theory," Preprint ANL/MCS-P2069-0312, March 2012. [pdf]
N. Liu, J. Cope, P. Carns, C. Carothers, R. Ross, G. Grider, A. Crume, C. Maltzahn, "On the Role of Burst Buffers in Leadership-Class Storage Systems," Preprint ANL/MCS-P2070-0312, March 2012. [pdf]
D. Kimpe, P. Carns, K. Harms, J. M. Wozniak, S. Lang, R. Ross, "AESOP: Expressing Concurrency in High-Performance System Software," Preprint ANL/MCS-P2068-0312, March 2012. [pdf]
N. Liu, J. Cope, P. Carns, C. Carothers, R. Ross, G. Grider, A. Crume, C. Maltzahn, "On the Role of Burst Buffers in Leadership-Class Storage Systems," Preprint ANL/MCS-P2070-0312, March 2012. [pdf]
J. Akerley, M. Greiner, A. Obabko, P. Fischer, "Flow Destabilization and Heat Transfer Augmentation in an Array of Grooved Passages with Developing Flow," Preprint ANL/MCS-P2061-0312, March 2012. [pdf]
Z. Insepov, J. Rest, A. M. Yacout, B. Ye, D. Yun, A. Y. Kuksin, G. E. Norman, V. V. Stegailov, A. V. Yanilkin, "Atomistic and Kinetic Simulations of Radiation Damage in Molybdenum," Preprint ANL/MCS-P2073-0312, March 2012. [pdf]
J. Fu, M. Min, R. Latham, C. D. Carothers, "I/O Threads to Reduce Checkpoint Blocking for an Electromagnetics Solver on Blue Gene/P and Cray XK6," Preprint ANL/MCS-P2074-0312, March 2012. [pdf]
J. J. More and S. M. Wild, "Do You Trust Derivatives or Differences?*," Preprint ANL/MCS-P2067-0312, March 2012. [pdf]
D. Buntinas, "Scalable Distributed Consensus to Support MPI Fault Tolerance," Lecture Notes in Computer Science, vol. 6960, Springer, September 2011, pp. 325-328. Also Preprint ANL/MCS-P2027-0212, February 2012. [pdf]
J. Dinan, P. Balaji, J. R. Hammond, S. Krishnamoorthy, V. Tipparaju, "Supporting the Global Arrays PGAS Model Using MPT One-Sided Communication," Preprint ANL/MCS-P2023-0212, February 2012. [pdf]
J. Jenkins, P. Balaji, J. Dinan, N. F. Samatova, R. Thakur, "Enabling Fast, Non contiguous GPU Data Movement in Hybrid MPI+GPU Environments," Preprint ANL/MCS-P2028-0212, February 2012. [pdf]
R. Kettimuthu, L. Lacinski, M. Link, K. Pickett, S. Tuecke, I. Foster, "Instant GridFTP," Preprint ANL/MCS-P2052-0212, February 2012. [pdf]
S. Xiao, P. Balaji, Q. Zhu, R. Thakur, S. Coghlan, H. Lin, G. Wen, J. Hong, W. Feng, "VOCL: An Optimized Environment for Transparent Virtualization of Graphics Processing Units," Preprint ANL/MCS-P2029-0212, February 2012. [pdf]
Z. Insepov, S. V. Starikov, D. Yun, A. M. Yacout, "Multiscale Simulation Models of Xe Bubble Formation in Irradiated Mo," Preprint ANL/MCS-P2047-0212, February 2012. [pdf]
A. Kannan and S. M. Wild, "Benefits of Deeper Analysis in Simulation-Based Groundwater Optimization Problems," Preprint ANL/MCS-P2043-0212, February 2012. [pdf]
F. M. Hoffman, J. W. Larson, R. T. Mills, B. J. Brooks, A. R. Ganguly, W. W. Hargrove, J. Huang, J. Kumar, R. R. Vatsavai, "Data Mining in Earth System Science (DMESS 2011)," Preprint ANL/MCS-P2046-0212, February 2012. [pdf]
A. Wilke, J. Wilkening, E. M. Glass, N. L. Desai, F. Meyer, "Porting the MG-RAST Metagenomic Data Analysis Pipeline to the Cloud," Preprint ANL/MCS-P2050-0212, February 2012. [pdf]
J. M. Salazar, U. Diwekar, E. Constantinescu, and V. M. Zavala, "Stochastic Optimization Approach to Water Management in Cooling-Constrained Power Plants," Preprint ANL/MCS-P2026-0212, February 2012. [pdf]
A. Wilke, T. Harrison, J. Wilkening, D. Field, E. M. Glass, N. Kyrpides, K. Mavrommatis, F. Meyer, "The M5nr: A Novel Non-Redundant Database Containing Protein Sequences and Annotations from Multiple Sources and Associated Tools," Preprint ANL/MCS-P2044-0212, February 2012. [pdf]
T. G. Armstrong, J. M. Wozniak, M. Wilde, K. Maheshwari, D. S. Katz, M. Ripeanu, E. L. Lusk, I. T. Foster, "ExM: High Level Dataflow Programming for Extreme-Scale Systems," Preprint ANL/MCS-P2045-0212, February 2012. [pdf]
Z. Insepov, A. Kuksin, J. Rest, S. Starikov, A. Yanilkin, A. M. Yacout, B. Ye, D. Yun, "Simulation of Ion Irradiation of Nuclear Materials and Comparison with Experiment," Preprint ANL/MCS-P2051-0212, February 2012. [pdf]
P. Balaji, D. Buntinas, D. Kimpe, "Fault Tolerance Techniques for Scalable Computing," Preprint ANL/MCS-P2037-0212, February 2012. [pdf]
N. Goldberg, S. Leyffer, I. Safro, "Optimal Response to Epidemics and Cyber Attacks in Networks," Preprint ANL/MCS-P1992-0112, January 2012. [pdf]
P. Balaprakash, S. M. Wild, P. D. Hovland, "An Experimental Study of Global and Local Search Algorithms in Empirical Performance Tuning," Preprint ANL/MCS-P1995-0112, January 2012. [pdf]
J. Chen, P. Hovland, T. Munson, J. Utke, "An Integer Programming Approach to Optimal Derivative Accumulation," Preprint ANL/MCS-P1994-0112, January 2012. [pdf]
A. Mametjanov, B. Norris, X. Zeng, B. Drewniak, J. Utke, M. Anitescu, P. Hovland, "Applying Automatic Differentiation to the Community Land Model," Preprint ANL/MCS-P1993-0112, January 2012. [pdf]
S. H. K. Narayanan, B. Norris, P. Hovland, A. Gebremedhin, "Implementation of Partial Separability in a Source-to-Source Transformation AD Tool," Preprint ANL/MCS-P1997-0112, January 2012. [pdf]
Kim, S. J.; Woo Son, S.; Kandemir, M.; Liao, W.; Thakur, R.; Choudhary, A., "Dynamic Tracing of Parallel I/O Activity in HPC Applications," Preprint ANL/MCS-P2007-0112, January 2012. [pdf]
J. A. Reed, J. Utke, H. S. Abdel-khalik, "Combining Automatic Differentiation Methods for High Dimensional Nonlinear Models," Preprint ANL/MCS-P2014-0112, January 2012. [pdf]
Laurent Hascoet and Jean Utke, "Handling Pointers and Dynamic Memory," Preprint ANL/MCS-P2013-0112, January 2012. [pdf]
H. Cole-Mullen, A. Lyons, J. Utke, "Storing Versus Recomputation on Multiple DAGs," Preprint ANL/MCS-P2015-0112, January 2012. [pdf]
I. Safro, P. Sanders, C. Schulz, "Advanced Coarsening Schemes for Graph Partitioning," Preprint ANL/MCS-P2016-0112, January 2012. [pdf]
L. Zamboni, A. Cherchi, M. Barreiro, F. Kurcharski, "Dynamic of the Impact of ENSO Flavors on Precipitation over La Plata Basin," Preprint ANL/MCS-P2009-0112, January 2012. [pdf]
E. Gawlik, T. Munson, J. Sarich, S. M. Wild, "The TAO Linearly-Constrained Augmented Lagrangian Method for PDE-Constrained Optimization," Preprint ANL/MCS-P2003-0112, January 2012. [pdf]
M. McCourt, T. D. Rognlien, L. C. McInnes, H. Zhang, "Improving Parallel Scalability for Edge Plasma Transport Simulations with Neutral Gas Species," Preprint ANL/MCS-P2018-0112, January 2012. [pdf]
J. Brown, M. G. Knepley, D. A. May, L. C. McInnes, B. Smith, "Composable LInear Solvers for Multiphysics," Preprint ANL/MCS-P2017-0112, January 2012. [pdf]
N. A. Best, J. W. Elliott, I. T. Foster, "Synthesis of a Complete Land Use/Land Cover Data Set for Conterminous United States," Preprint ANL/MCS-P1998-0112, January 2012. [pdf]
T. Munson, J. Sarich, S. Wild, S. Benson, L. C. McInnes, "TAO 2.0 Users Manual," Technical Memorandum ANL/MCS-TM-322, January 2012. [pdf]
S. Mohanty, R. Jain, S. Majumdar, T. J. Tautges, and M. Srinivasan, "Coupled Field-Structural Analysis of HTGR Fuel Brick Using Abaqus," Preprint ANL/MCS-P2008-0112, January 2012. [pdf]
A. N. Adhikari, J. Peng, M. Wilde, J. Xu, K. F. Freed, T. R. Sosnick, "Modeling Large Regions in Proteins: Applications to Loops, Termini and Folding," Protein Science, vol. 21, no. 1, January 2012, pp. 107-121. Also Preprint ANL/MCS-P1976-1111, November 2011. [pdf]
J. Leigh, A. Johnson, L. Renambot, V. Vishwanath, T. Peterka, N. Schwarz, "Visualization of Large-Scale Distributed Data," Data Intensive Distributed Computing, 2012. Also Preprint ANL/MCS-P1907-0611, June 2011. [pdf]
J. Larson and S. M. Wild, "Non-intrusive Termination of Noisy Optimization," Optimization Methods and Software, 2012. Also Preprint ANL/MCS-P1887-0511, May 2011. [pdf]
E. M. Glass and F. Meyer, "Analysis of Metagenomics Data," Bioinformatics for High Throughput Sequencing, Springer, January 2012. Also Preprint ANL/MCS-P1856-0311, March 2011. [pdf]
