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A Genetic Algorithm for Mixed Integer Nonlinear Programming Problems Using Separate Constraint Approximations
(Department of Computer Science, Virginia Polytechnic Institute & State University, 2003), TR-03-22
This paper describes a new approach for reducing the number of the fitness and constraint function evaluations required by a genetic algorithm (GA) for optimization problems with mixed continuous and discrete design ...
ScALPEL: A Scalable Adaptive Lightweight Performance Evaluation Library for application performance monitoring
(Department of Computer Science, Virginia Polytechnic Institute & State University, 2009-02-01), TR-09-03
As supercomputers continue to grow in scale and capabilities, it is becoming increasingly difficult to isolate processor and system level causes of performance degradation. Over the last several years, a significant number ...
Parameter Estimation for a Mathematical Model of the Cell Cycle in Frog Eggs
(Department of Computer Science, Virginia Polytechnic Institute & State University, 2002-08-01), TR-02-18
Parameter values for a kinetic model of teh nuclear replication-division cycle in frog eggs are estimated by fitting solutions of the kinetic equations (nonlinear ordinary differential equations) to a suite of experimental ...
A fully Distributed Parallel Global Search Algorithm
(Department of Computer Science, Virginia Polytechnic Institute & State University, 2000), TR-00-06
The n-dimensional direct search algorithm DIRECT of Jones,Perttunen, and Stuckman has attracted recent attention from the multidisciplinary design optimization community. Since DIRECT only requires function values (or ...
Architectural Refactoring for Fast and Modular Bioinformatics Sequence Search
(Department of Computer Science, Virginia Polytechnic Institute & State University, 2006-09-01), TR-06-20
Bioinformaticists use the Basic Local Alignment Search Tool (BLAST) to characterize an unknown sequence by comparing it against a database of known sequences, thus detecting evolutionary relationships and biological ...
On the Robust Mapping of Dynamic Programming onto a Graphics Processing Unit
(Department of Computer Science, Virginia Polytechnic Institute & State University, 2009), TR-09-20
Graphics processing units (GPUs) have been widely used to accelerate algorithms that exhibit massive data parallelism or task parallelism. When such parallelism is not inherent in an algorithm, computational scientists ...
Dynamic Multigrain Parallelization on the Cell Broadband Engine
(Department of Computer Science, Virginia Polytechnic Institute & State University, 2006), TR-06-24
This paper addresses the problem of orchestrating and scheduling parallelism at multiple levels of granularity on heterogeneous multicore processors. We present policies and mechanisms for adaptive exploitation and ...
Multilayered Heterogeneous Parallelism Applied to Atmospheric Constituent Transport Simulation
(Department of Computer Science, Virginia Polytechnic Institute & State University, 2008-10-01), TR-08-21
Heterogeneous multicore chipsets with many levels of parallelism are becoming increasingly common in high-performance computing systems. Effective use of parallelism in these new chipsets constitutes the challenge facing ...
Performance of a Parallel Transport Code for Molecular Electronics Simulations
(Department of Computer Science, Virginia Polytechnic Institute & State University, 2002-02-01), TR-02-05
We describe the sequential and parallel performance of a nonlinear transport simulation code. This code is used by researchers at Virginia Tech to investigate phenomena underlying the emerging eld of molecular electronics. ...
Deterministic Parallel Global Parameter Estimation for a Model of the Budding Yeast Cell Cycle
(Department of Computer Science, Virginia Polytechnic Institute & State University, 2006), TR-06-01
Two parallel deterministic direct search algorithms are used to find improved parameters for a system of differential equations designed to simulate the cell cycle of budding yeast. Comparing the model simulation results ...