Task scheduling in genetic sequencing tool

Authors

  • Jefer Benedett Dorr Universidade Federal do Paraná
  • Guilherme Galante Universidade Federal do Paraná
  • Luis Carlos E. De Bona Universidade Federal do Paraná

DOI:

https://doi.org/10.4013/jacr.2013.32.05

Abstract

This paper proposes a task scheduler to control the demand of sending gaps encountered during the process of genome sequencing processing considering computational resources available. Gaps are spaces without representation in the genome sequencing process. This activity generates many competing tasks that consume a lot of computational resources, mainly memory. The goal of the scheduler is to prevent more required computational resources besides those which can be alive supplied, because in this case, a performance degradation of the system will occur and it may cause a delay in the processing time of the tasks. The motivation for this work is to improve the efficiency of the implementation of the closure of gaps in genome sequencing. For the evaluation of the proposal, a scheduler for gaps with scheduling policies based on monitoring of computing resources has been implemented.

Keywords: bioinformatics, scheduling tasks, genetic sequencing.

Author Biography

Jefer Benedett Dorr, Universidade Federal do Paraná

Master Science (Stricto Sensu) [Master Science http://www.inf.ufpr.br/pos// Student in Computer Science of DINF, Federal University of Parana - UFPR. With support of REUNI - Support Program for the Restructuring and Expansion of Federal Universities

http://www.inf.ufpr.br/jbdorr/en

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Published

2014-09-04

Issue

Vol. 3 No. 2 (2013): Jul-Dec

Section

Articles

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