Necessity is the mother of invention: a simple grid computing system using commodity tools

被引:31
作者
Myers, DS
Cummings, MP [1 ]
机构
[1] Marine Biol Lab, Josephine Bay Paul Ctr Comparat Mol Biol & Evolut, Woods Hole, MA 02543 USA
[2] Pomona Coll, Dept Math & Comp Sci, Claremont, CA 91711 USA
关键词
Apache; distributed computing; Grid computing; HTTP; !text type='Java']Java[!/text; Linux; Perl; SQL; UNIX; XML-RPC; DNA-SEQUENCE DATA; INFERENCE; LIKELIHOOD; PHYLOGENY; BOOTSTRAP; SUCCESS;
D O I
10.1016/S0743-7315(03)00004-2
中图分类号
TP301 [理论、方法];
学科分类号
081202 ;
摘要
Access to sufficient resources is a barrier to scientific progress for many researchers facing large computational problems. Gaining access to large-scale resources (i.e., university-wide or federally supported computer centers) can be difficult, given their limited availability, particular architectures, and request/review/approval cycles. Simultaneously, researchers often find themselves with access to workstations and older clusters overlooked by their owners in favor of newer hardware. Software to tie these resources into a coherent Grid, however, has been problematic. Here, we describe our experiences building a Grid computing system to conduct a large-scale simulation study using "borrowed" computing resources distributed over a wide area. Using standard software components, we have produced a Grid computing system capable of coupling several hundred processors spanning multiple continents and administrative domains. We believe that this system fills an important niche between a closely coupled local system and a heavyweight, highly customized wide area system. (C) 2003 Elsevier Science (USA). All rights reserved.
引用
收藏
页码:578 / 589
页数:12
相关论文
共 19 条
[1]   Parasitic computing [J].
Barabási, AL ;
Freeh, VW ;
Jeong, HW ;
Brockman, JB .
NATURE, 2001, 412 (6850) :894-897
[2]  
BECKER DJ, 1995, P 1995 INT C PAR PRO, P11
[3]   Genes and other samples of DNA sequence data for phylogenetic inference [J].
Cummings, MP ;
Otto, SP ;
Wakeley, J .
BIOLOGICAL BULLETIN, 1999, 196 (03) :345-347
[4]  
CUMMINGS MP, 1995, MOL BIOL EVOL, V12, P814
[5]  
CUMMINGS MP, UNPUB SYST BIOL
[6]   Bootstrap confidence levels for phylogenetic trees [J].
Efron, B ;
Halloran, E ;
Holmes, S .
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA, 1996, 93 (14) :7085-7090
[7]  
Efron B., 1993, An introduction to the bootstrap
[8]  
FELSENSTEIN J, 1985, EVOLUTION, V39, P783, DOI 10.1111/j.1558-5646.1985.tb00420.x
[9]  
Foster I, 1999, GRID: BLUEPRINT FOR A NEW COMPUTING INFRASTRUCTURE, P259
[10]   SUCCESS OF MAXIMUM-LIKELIHOOD PHYLOGENY INFERENCE IN THE 4-TAXON CASE [J].
GAUT, BS ;
LEWIS, PO .
MOLECULAR BIOLOGY AND EVOLUTION, 1995, 12 (01) :152-162