COVID-19 Heterogeneity in Islands Chain Environment

As 2021 dawns, the COVID-19 pandemic is still raging strongly as vaccines finally appear and hopes for a return to normalcy start to materialize. There is much to be learned from the pandemic's first year data that will likely remain applicable to future epidemics and possible pandemics. With only minor variants in virus strain, countries across the globe have suffered roughly the same pandemic by first glance, yet few locations exhibit the same patterns of viral spread, growth, and control as the state of Hawai'i. In this paper, we examine the data and compare the COVID-19 spread statistics between the counties of Hawai'i as well as examine several locations with similar properties to Hawai'i

Performance Evaluation of Supercomputers using HPCC and IMB Benchmarks

The HPC Challenge (HPCC) benchmark suite and the Intel MPI Benchmark (IMB) are used to compare and evaluate the combined performance of processor, memory subsystem and interconnect fabric of five leading supercomputers - SGI Altix BX2, Cray XI, Cray Opteron Cluster, Dell Xeon cluster, and NEC SX-8. These five systems use five different networks (SGI NUMALINK4, Cray network, Myrinet, InfiniBand, and NEC IXS). The complete set of HPCC benchmarks are run on each of these systems. Additionally, we present Intel MPI Benchmarks (IMB) results to study the performance of 11 MPI communication functions on these systems

Benchmark Design for Characterization of Balanced High-Performance Architectures

We describe the design and MPI implementation of two benchmarks created to characterize the balanced system performance of high-performance clusters and supercomputers. We start with a communication-specific benchmark, called b eff that characterizes the message passing performance of a system. Following the same line of development, we extend this work to the design and implementation of the effective I/O bandwidth benchmark (b eff io). Both of these benchmarks have two goals: a) to obtain a single bandwidth number that characterizes the average performance of the system namely processor communication for b eff, and the I/O subsystem for b eff io, and b) to get a detailed insight into the performance strengths and weaknesses of different parallel communication and I/O patterns. Both benchmarks use a time-driven approach and loop over a variety of communication and access patterns to characterize a system in a fairly automated fashion. Results of the two benchmarks are given for several systems including IBM SPs, Cray T3E, NEC SX-5, and Hitachi SR 8000. 1

Development Strategies for Modern Predictive Simulation Codes

Abstract not provide

Elements: ALE-AMR Framework and the PISALE Codebase

The solution of partial differential equations (PDEs) on modern HPC platforms is essential to the continued success of research and modeling for a wide variety of areas, especially groundwater flow and transport modeling in Pacific islands. The project implements an innovative combination of advanced mathematical techniques of Arbitrary Lagrangian Eulerian (ALE) methods with Adaptive Mesh Refinement (AMR), including parallel software tools to dynamically adapt the grids and special Lagrangian-flow methods that allow for the simulation of complex regional groundwater flow with dynamic freshwater and seawater interaction in heterogeneous volcanic rocks. The PISALE (Pacific Island Structured-AMR with ALE) software aims at a publicly available sustainable branch of the software and will provide accurate and scalable simulations of complex groundwater flow processes in the Hawaiian islands. The status of our ongoing project will be presented with student involvement, course development, and future plans</p

The parallel effective i/o bandwidth benchmark: b eff io. Message Passing Interface Developer’s and User’s Conference (MPIDC

ABSTRACT. The parallel effective I/O bandwidth benchmark (b_eff_io) is aimed at producing a characteristic average number of the I/O bandwidth achievable with parallel MPI-I/O applications exhibiting various access patterns and using various buffer lengths. It is designed so that 15 minutes should be sufficient for a first pass of all access patterns. First results of the b_eff_io benchmark are given for the IBM SP, Cray T3E, Hitachi SR 8000, and NEC SX-5 systems, and a discussion follows about problematic issues of our current approach. We show how a redesign of our time-driven approach allows for rapid benchmarking of I/O bandwidth with various compute partition sizes. Next, we present how implementation specific file hints can be enabled selectively on a per access pattern basis, and we illustrate the benefit that hints can provide using the latest version of the IBM MPI-IO/GPFS prototype