Bio-Cirrus: a framework for running legacy bioinformatics applications with cloud computing resources

Authors:
Tor Johan Mikael Karlsson;Óscar Torreño Tirado;Daniel Ramet;Juan Lago;Juan Falgueras Cano;Noura Chelbat;Oswaldo Trelles
Affiliations:
Department of Computer Architecture, University of Málaga, Málaga, Spain;Department of Computer Architecture, University of Málaga, Málaga, Spain;Department of Computer Architecture, University of Málaga, Málaga, Spain;Fundacion Iavante, Consejeria de Salud, Junta de Andalucía, Spain;Department of Languages and Computer Sciences, University of Málaga, Málaga, Spain;Institute for Bioinformatics, Johannes Kepler University, Linz, Austria;Department of Computer Architecture, University of Málaga, Málaga, Spain
Venue:
IWANN'13 Proceedings of the 12th international conference on Artificial Neural Networks: advences in computational intelligence - Volume Part II
Year:
2013

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Abstract

Technological advances in biological and biomedical data acquisition are creating mountains of data. Existing legacy applications are unable to process this data without using new strategies. However, some workloads in bioinformatics are easily parallelized by splitting the data, running legacy applications in parallel and then join the partial results into one final result. In this paper, we present Bio-Cirrus, a software package which facilitates this process. Our software consists of a user-friendly client (jORCA) for accessing Web Services and enacting workflows, and a module (Mr. Cirrus) for processing the data with a map/reduce style approach. Bio-Cirrus binaries and documentation are freely available at http://www.bitlab-es.com/cloud under the Creative Commons Attribution-No Derivative Works 2.5 Spain License and its source code is available under request. (GPL v3 license).