Comput. Biol. Med. - Automating fault tolerance in high-performance computational biological jobs using multi-agent approaches.

Tópicos

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Resumo

CKGROUND: Large-scale biological jobs on high-performance computing systems require manual intervention if one or more computing cores on which they execute fail. This places not only a cost on the maintenance of the job, but also a cost on the time taken for reinstating the job and the risk of losing data and execution accomplished by the job before it failed. Approaches which can proactively detect computing core failures and take action to relocate the computing cores job onto reliable cores can make a significant step towards automating fault tolerance.METHOD: This paper describes an experimental investigation into the use of multi-agent approaches for fault tolerance. Two approaches are studied, the first at the job level and the second at the core level. The approaches are investigated for single core failure scenarios that can occur in the execution of parallel reduction algorithms on computer clusters. A third approach is proposed that incorporates multi-agent technology both at the job and core level. Experiments are pursued in the context of genome searching, a popular computational biology application.RESULT: The key conclusion is that the approaches proposed are feasible for automating fault tolerance in high-performance computing systems with minimal human intervention. In a typical experiment in which the fault tolerance is studied, centralised and decentralised checkpointing approaches on an average add 90% to the actual time for executing the job. On the other hand, in the same experiment the multi-agent approaches add only 10% to the overall execution time.

Resumo Limpo

ckground largescal biolog job highperform comput system requir manual intervent one comput core execut fail place cost mainten job also cost time taken reinstat job risk lose data execut accomplish job fail approach can proactiv detect comput core failur take action reloc comput core job onto reliabl core can make signific step toward autom fault tolerancemethod paper describ experiment investig use multiag approach fault toler two approach studi first job level second core level approach investig singl core failur scenario can occur execut parallel reduct algorithm comput cluster third approach propos incorpor multiag technolog job core level experi pursu context genom search popular comput biolog applicationresult key conclus approach propos feasibl autom fault toler highperform comput system minim human intervent typic experi fault toler studi centralis decentralis checkpoint approach averag add actual time execut job hand experi multiag approach add overal execut time

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