Scalable molecular dynamics with NAMD
JC Phillips, R Braun, W Wang… - Journal of …, 2005 - Wiley Online Library
NAMD is a parallel molecular dynamics code designed for high‐performance simulation of
large biomolecular systems. NAMD scales to hundreds of processors on high‐end parallel …
large biomolecular systems. NAMD scales to hundreds of processors on high‐end parallel …
The case of the missing supercomputer performance: Achieving optimal performance on the 8,192 processors of ASCI Q
In this paper we describe how we improved the effective performance of ASCI Q, the world's
second-fastest supercomputer, to meet our expectations. Using an arsenal of performance …
second-fastest supercomputer, to meet our expectations. Using an arsenal of performance …
Bigsim: A parallel simulator for performance prediction of extremely large parallel machines
Summary form only given. We present a parallel simulator-BigSim-for predicting
performance of machines with a very large number of processors. The simulator provides …
performance of machines with a very large number of processors. The simulator provides …
Proactive fault tolerance in MPI applications via task migration
Failures are likely to be more frequent in systems with thousands of processors. Therefore,
schemes for dealing with faults become increasingly important. In this paper, we present a …
schemes for dealing with faults become increasingly important. In this paper, we present a …
[图书][B] Parallel science and engineering applications: The Charm++ approach
This book highlights the use of Charm++ in a wide variety of scientific and engineering
fields. It emphasizes the adaptivity, asynchrony, and message-driven execution of Charm++ …
fields. It emphasizes the adaptivity, asynchrony, and message-driven execution of Charm++ …
Combing the communication hairball: Visualizing parallel execution traces using logical time
With the continuous rise in complexity of modern supercomputers, optimizing the
performance of large-scale parallel programs is becoming increasingly challenging …
performance of large-scale parallel programs is becoming increasingly challenging …
ParFUM: a parallel framework for unstructured meshes for scalable dynamic physics applications
OS Lawlor, S Chakravorty, TL Wilmarth… - Engineering with …, 2006 - Springer
Unstructured meshes are used in many engineering applications with irregular domains,
from elastic deformation problems to crack propagation to fluid flow. Because of their …
from elastic deformation problems to crack propagation to fluid flow. Because of their …
A comparative analysis of load balancing algorithms applied to a weather forecast model
Among the many reasons for load imbalance in weather forecasting models, the dynamic
imbalance caused by localized variations on the state of the atmosphere is the hardest one …
imbalance caused by localized variations on the state of the atmosphere is the hardest one …
Evaluating similarity-based trace reduction techniques for scalable performance analysis
K Mohror, KL Karavanic - Proceedings of the conference on high …, 2009 - dl.acm.org
Event traces are required to correctly diagnose a number of performance problems that arise
on today's highly parallel systems. Unfortunately, the collection of event traces can produce …
on today's highly parallel systems. Unfortunately, the collection of event traces can produce …
[PDF][PDF] Proactive fault tolerance in large systems
High-performance systems with thousands of processors have been introduced in the recent
past, and systems with hundreds of thousands of processors should become available in the …
past, and systems with hundreds of thousands of processors should become available in the …