Program for the High Performance Computing Symposium
(HPC 2011)
Boston, Massachusetts, USA

April 4–6, 2011

part of the

SCS Spring Simulation Multiconference (SpringSim'11)

Monday, April 4

8:30–12:00 SpringSim 2011 Keynote Speakers

Dr. Laszlo Barabasi,
Director of the Center for Complex Network Research, Northeastern University

Dr. Paul Barton,
Lammot du Pont Professor of Chemical Engineering, Massachusetts Institute of Technology

Dr. Pieter Mosterman,
Senior Research Scientist, The MathWorks Inc.

1:30–2:00 HPC'11 Best Paper I

A Multi-Core Numerical Framework for Characterizing Flow in Oil Reservoirs,
Christopher Leonardi (MIT), David Holmes (James Cook University), John Williams (MIT) and Peter Tilke (Schlumberger-Doll Research Center)

2:00–3:00 Invited Speaker I

Marketplace and the HPC Innovation
Niraj Srivastava, Raytheon Company

3:30–4:00 HPC'11 Best Paper II

An SMP Soft Classification Algorithm for Remote Sensing,
Rhonda Phillips (MIT Lincoln Labs), Layne Watson (Virginia Tech) and Randolph Wynne (Virginia Tech)

4:00–5:30 Tutorial

Introduction to Parallel Computing with MATLAB,
Jiro Doke, Mathworks


Tuesday, April 5

8:30–10:00 SpringSim Keynote

Dr. Jacqueline R. Henningsen,
Director for Studies & Analysis, Assessments and Lessons Learned Headquarters U.S. Air Force, Washington, DC

10:30–11:00 Biology Applications

The Virtual Parasite Project: In silico HPC Simulation of Trypanasoma cruzi Host-Parasite Dynamics to Model Chagas Disease,
Tarynn Witten (VCU), Samuel Sieg (VCU) and Patricio Manque (Universidad Mayor)

11:00–12:00 Invited Speaker II

Microsoft Technical Computing: Modeling the world with greater fidelity,
Dr. Ronnie Hoogerwerf, HPC Microsoft

1:30–3:00 Numerical Methods

FATODE: A Library for Forward, Adjoint, and Tangent Linear Integration of Stiff Systems,
Hong Zhang and Adrian Sandu (Virginia Tech)

Shared Memory "Wide or Tall" and Sparse Matrix Dense Matrix Multiplications,
Gary Howell (NCSU)

Fully Implicit Tau-Leaping Methods for the Stochastic Simulation of Chemical Kinetics,
Tae-Hyuk Ahn and Adrian Sandu (Virginia Tech)

3:30–5:30 GPU and Multicore

Accelerating the Smoldyn Spatial Stochastic Biochemical Reaction Network Simulator Using GPUs,
Denis Gladkov (UW-Milwaukee), Samuel Alberts (UW-M), Steven Andrews (Fred Hutchinson Cancer Research Center) and Roshan D'Souza (UW-M)

Lattice Boltzmann Methods Simulations on Massively Parallel Multi-core Architectures,
Luca Biferale (University of Tor Vergata and INFN), Mauro Sbragaglia (UTV-INFN), Andrea Scagliarini (UTV-INFN), Filippo Mantovani (Deutsches Elektronen Synchrotron), Marcello Pivanti (University and INFN of Ferrara), Fabio Pozzati (U-INFN-F), Sebastiano Fabio Schifano (U-INFN-F), Raffaele Tripiccione (U-INFN-F) and Federico Toschi (Eindhoven University of Technology)

Parallel GMRES implementation for solving sparse linear systems on GPU clusters,
Jacques Bahi, Raphaël Couturier and Lilia Ziane Khodja (University of Franche-Comte)

Implementing Random Indexing on GPU,
Lukas Polok (Brno University of Technology)

Wednesday, April 6

8:30–9:30 Invited Speaker III

Convey ThreadSim: A Simulation Framework for Latency-Tolerant Architectures,
John Leidel, Convey Computer Corporation

9:30–10:00 Component Based Programming

Component-Based Programming Techniques for Coarse-grained Parallelism,
Jörg Dümmler (Chemnitz University of Technology), Thomas Rauber (University Bayreuth) and Gudula Rünger (CUT)

10:20–12:15 HPC Applications

Asynchronous Invocation of Adaptations in Electronic Structure Calculations,
Sai Kiran Talamudupula (Ames Laboratory - Iowa State University), Masha Sosonkina (Ames-ISU) and MikeSchmidt  (Iowa State University)

Direct Search Versus Simulated Annealing on Two High Dimensional Problems,
David Easterling, Layne Watson and Michael Madigan (Virginia Tech)

A Highly Parallel Implementation of K-Means for Multithreaded Architecture,
Patrick Mackey, John Feo, Pak Chung Wong and Yousu Chen (Pacific Northwest National Laboratory)

Fault-tolerant Data Aggregation Scheme for Monitoring of Critical Events in Grid based Healthcare Sensor Networks,
Ather Saeed, Andrew Stranieri and Richard Dazeley (University of Ballarat and Melbourne Institute of Technology)

1:30–3:00 Scheduling and Performance

Fast Approximation Algorithms for Scheduling Independent Multiprocessor Tasks,
Kai Baumgarten (SAP AG) and Thomas Rauber (University Bayreuth)

Communication with Spawned Processes,
Nicholas Radcliffe (Virginia Tech), Masha Sosonkina (Ames-Iowa State) and Layne Watson (Virginia Tech)

Corrected Model for "Predicting the Relative Performance of CPU",
Jayanta Choudhury

3:30–5:30 Software and Environments

A Data Management System for Ab-Initio Nuclear Physics Applications,
Fang Liu (Ames Lab - Iowa State University), Ritu Mundhe (Iowa State University), Masha Sosonkina (Ames - ISU), Chase Cockrell (ISU), Miles Aronnax ISU), Pieter Maris (ISU) and James Vary (ISU)

PetClaw: A Scalable Parallel Nonlinear Wave Propagation Solver for Python,
Amal Alghamdi (King Abdullah University of Science and Technology), Aron Ahmadia (KAUST), David Ketcheson (KAUST), Matthew Knepley (University of Chicago), Kyle Mandli (University of Washington) and Lisandro Dalcin (CIMEC)

Adaptive Runtime Selection of Parallel Schedules in the Polytope Model,
Benoît Pradelle, Philippe Clauss and Vincent Loechner (Université de Strasbourg)

A Framework for an Automatic Hybrid MPI+OpenMP code generation,
Khaled Hamidouche, Joel Falcou and Daniel Etiemble (University Paris - Sud XI)