E-SECO ProVersion: Manutenção e Evolução de Experimentos Científicos
Abstract
This paper discusses some characteristics of a scientific software ecosystem and the life cycle of an experiment, with emphasis on maintenance and evolution aspects. The E-SECO ProVersion is presented, that aim to support maintenance and evolution of experiments using data provenance. An extension of PROV model is presented together with an ontology, named PROV-OEXT. The article also presents existing workflows repositories and discuss the support that they provide to evolution and maintenance.
References
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Bosch, J. (2009, August). From software product lines to software ecosystems. In Proceedings of the 13th international software product line conference (pp. 111-119). Carnegie Mellon University.
Callahan, S. P., Freire, J., Santos, E., Scheidegger, C. E., Silva, C. T. and Vo, H. T. (2006). Managing the evolution of dataflows with VisTrails. In Data Engineering Workshops, 2006. Proceedings. 22nd International Conference on (pp. 71-71). IEEE.
Cuevas-Vicenttín, V., Kianmajd, P., Ludäscher, B., Missier, P., Chirigati, F., Wei, Y. and Dey, S. (2014). The PBase scientific workflow provenance repository. International Journal of Digital Curation, 9(2), 28-38.
Deelman, E., Gannon, D., Shields, M. and Taylor, I. (2009). Workflows and e-Science: An overview of workflow system features and capabilities. Future Generation Computer Systems, 25(5), p. 528-540.
Freitas, V.; David, J. M. N.; Braga, R. M. and Campos, Fernanda. (2015). An architecture for a Scientific Ecossystem. In: 9th Workshop on Distributed Software Development, Software Ecosystems and Systems-of-Systems (WDES 2015), Belo Horizonte, Brazil, SBC, p. 41-48.
Gil, Y., Ratnakar, V., Deelman, E., Mehta, G.and Kim, J. (2007, July). Wings for pegasus: Creating large-scale scientific applications using semantic representations of computational workflows. In Proceedings of the National Conference on Artificial Intelligence (Vol. 22, No. 2, p. 1767).
Goble, C. A., Bhagat, J., Aleksejevs, S., Cruickshank, D., Michaelides, D., Newman, D. and De Roure, D. (2010). myExperiment: a repository and social network for the sharing of bioinformatics workflows. Nucleic acids research, 38(suppl 2), p. 677-682.
Hasan, R., Sion, R. and Winslett, M. (2007, October). Introducing secure provenance: problems and challenges. In Proceedings of the 2007 ACM workshop on Storage security and survivability (p. 13-18). ACM.
Lebo, T., Sahoo, S., McGuinness, D., Belhajjame, K., Cheney, J., Corsar, D. and Zhao, J. (2013). PROV-O: The PROV Ontology [www Document]. URL http://www.w3.org/TR/prov-o/
Lim, C., Lu, S., Chebotko, A., & Fotouhi, F. (2010, July). Prospective and retrospective provenance collection in scientific workflow environments. In Services Computing (SCC), 2010 IEEE International Conference on (pp. 449-456). IEEE.
Mattoso, M., Werner, C., Travassos, G., Braganholo, V., Murta, L., Ogasawara, E. and Martinho, W. (2009). Desafios no apoio à composição de experimentos científicos em larga escala. Seminário Integrado de Software e Hardware, SEMISH, 9, 36.
Miranda, G; De Souza, J. A.; Braganholo, V.; Oliveira, D. de. (2014). CollabCumulus: Uma Ferramenta de Apoio à Análise Colaborativa de Proveniência em Workflows Científicos. SBSC.
Moreau, L. and Missier, P. (2013). PROV-DM: The PROV Data Model [www Document]. URL http://www.w3.org/TR/prov-dm/
Moreau, L., Clifford, B., Freire, J., Futrelle, J., Gil, Y., Groth, P. and Plale, B. (2011). The open provenance model core specification (v1.1). Future generation computer systems, 27(6), 743-756.
Oinn, T., Li, P., Kell, D. B., Goble, C., Goderis, A., Greenwood, M. and Zhao, J. (2007). Taverna/myGrid: aligning a workflow system with the life sciences community. In Workflows for e-Science (p. 300-319). Springer London.
Silva, V., Chirigati, F., Maia, K., Ogasawara, E., Oliveira, D., Braganholo, V. and Mattoso, M. (2010). SimiFlow: Uma Arquitetura para Agrupamento de Workflows por Similaridade. IV e-Science, 1-8.
Vaz, G. J., Giachetto, P. F., Torres, T. Z. and Massruhá, S. M. (2012). Um Modelo de Estrutura Organizacional em Plataformas de E-Science. In Anais do Congresso da Sociedade Brasileira de Computação (Vol. 32).
Belloum, A., Inda, M. A., Vasunin, D., Korkhov, V., Zhao, Z., Rauwerda, H. and Hertzberger, L. O. (2011). Collaborative e-science experiments and scientific workflows. Internet Computing, IEEE, 15(4), p. 39-47.
Bosch, J. (2009, August). From software product lines to software ecosystems. In Proceedings of the 13th international software product line conference (pp. 111-119). Carnegie Mellon University.
Callahan, S. P., Freire, J., Santos, E., Scheidegger, C. E., Silva, C. T. and Vo, H. T. (2006). Managing the evolution of dataflows with VisTrails. In Data Engineering Workshops, 2006. Proceedings. 22nd International Conference on (pp. 71-71). IEEE.
Cuevas-Vicenttín, V., Kianmajd, P., Ludäscher, B., Missier, P., Chirigati, F., Wei, Y. and Dey, S. (2014). The PBase scientific workflow provenance repository. International Journal of Digital Curation, 9(2), 28-38.
Deelman, E., Gannon, D., Shields, M. and Taylor, I. (2009). Workflows and e-Science: An overview of workflow system features and capabilities. Future Generation Computer Systems, 25(5), p. 528-540.
Freitas, V.; David, J. M. N.; Braga, R. M. and Campos, Fernanda. (2015). An architecture for a Scientific Ecossystem. In: 9th Workshop on Distributed Software Development, Software Ecosystems and Systems-of-Systems (WDES 2015), Belo Horizonte, Brazil, SBC, p. 41-48.
Gil, Y., Ratnakar, V., Deelman, E., Mehta, G.and Kim, J. (2007, July). Wings for pegasus: Creating large-scale scientific applications using semantic representations of computational workflows. In Proceedings of the National Conference on Artificial Intelligence (Vol. 22, No. 2, p. 1767).
Goble, C. A., Bhagat, J., Aleksejevs, S., Cruickshank, D., Michaelides, D., Newman, D. and De Roure, D. (2010). myExperiment: a repository and social network for the sharing of bioinformatics workflows. Nucleic acids research, 38(suppl 2), p. 677-682.
Hasan, R., Sion, R. and Winslett, M. (2007, October). Introducing secure provenance: problems and challenges. In Proceedings of the 2007 ACM workshop on Storage security and survivability (p. 13-18). ACM.
Lebo, T., Sahoo, S., McGuinness, D., Belhajjame, K., Cheney, J., Corsar, D. and Zhao, J. (2013). PROV-O: The PROV Ontology [www Document]. URL http://www.w3.org/TR/prov-o/
Lim, C., Lu, S., Chebotko, A., & Fotouhi, F. (2010, July). Prospective and retrospective provenance collection in scientific workflow environments. In Services Computing (SCC), 2010 IEEE International Conference on (pp. 449-456). IEEE.
Mattoso, M., Werner, C., Travassos, G., Braganholo, V., Murta, L., Ogasawara, E. and Martinho, W. (2009). Desafios no apoio à composição de experimentos científicos em larga escala. Seminário Integrado de Software e Hardware, SEMISH, 9, 36.
Miranda, G; De Souza, J. A.; Braganholo, V.; Oliveira, D. de. (2014). CollabCumulus: Uma Ferramenta de Apoio à Análise Colaborativa de Proveniência em Workflows Científicos. SBSC.
Moreau, L. and Missier, P. (2013). PROV-DM: The PROV Data Model [www Document]. URL http://www.w3.org/TR/prov-dm/
Moreau, L., Clifford, B., Freire, J., Futrelle, J., Gil, Y., Groth, P. and Plale, B. (2011). The open provenance model core specification (v1.1). Future generation computer systems, 27(6), 743-756.
Oinn, T., Li, P., Kell, D. B., Goble, C., Goderis, A., Greenwood, M. and Zhao, J. (2007). Taverna/myGrid: aligning a workflow system with the life sciences community. In Workflows for e-Science (p. 300-319). Springer London.
Silva, V., Chirigati, F., Maia, K., Ogasawara, E., Oliveira, D., Braganholo, V. and Mattoso, M. (2010). SimiFlow: Uma Arquitetura para Agrupamento de Workflows por Similaridade. IV e-Science, 1-8.
Vaz, G. J., Giachetto, P. F., Torres, T. Z. and Massruhá, S. M. (2012). Um Modelo de Estrutura Organizacional em Plataformas de E-Science. In Anais do Congresso da Sociedade Brasileira de Computação (Vol. 32).
Published
2016-07-04
How to Cite
SIRQUEIRA, Tassio F. M.; DALPRA, Humberto L. O.; BRAGA, Regina; ARAÚJO, Marco A. P.; DAVID, José Maria N.; CAMPOS, Fernanda.
E-SECO ProVersion: Manutenção e Evolução de Experimentos Científicos. In: BRAZILIAN E-SCIENCE WORKSHOP (BRESCI), 10. , 2016, Porto Alegre.
Anais [...].
Porto Alegre: Sociedade Brasileira de Computação,
2016
.
p. 253-260.
ISSN 2763-8774.
DOI: https://doi.org/10.5753/bresci.2016.9974.
