Skip to main content
SpringerLink
Log in

INFN, IT the GENIUS grid portal and the robot certificates to perform phylogenetic analysis on large scale: a success story from the International LIBI project

  • Conference paper
  • First Online:
Managed Grids and Cloud Systems in the Asia-Pacific Research Community

  • 349 Accesses

Abstract

This paper depicts the solution proposed by INFN to allow users, not owning a personal digital certificate and therefore not belonging to any specific Virtual Organization (VO), to access Grid infrastructures via the GENIUS Grid portal enabled with robot certificates. Robot certificates, also known as portal certificates, are associated with a specific application that the user wants to share with the whole Grid community and have recently been introduced by the EUGridPMA (European Policy Management Authority for Grid Authentication) to perform automated tasks on Grids on behalf of users. They are proven to be extremely useful to automate grid service monitoring, data processing production, distributed data collection systems, etc. In this paper, robot certificates have been used to allow bioinformaticians involved in the Italian LIBI project to perform large scale phylogenetic analyses. The distributed environment set up in this work strongly simplify the grid access of occasional users and represents a valuable step forward to wide the communities of users.

This is a preview of subscription content, log in via an institution to check access.

Access this chapter

Log in via an institution
Chapter
USD 29.95
Price excludes VAT (USA)
  • Available as PDF
  • Read on any device
  • Instant download
  • Own it forever
eBook
USD 169.00
Price excludes VAT (USA)
  • Available as PDF
  • Read on any device
  • Instant download
  • Own it forever
Softcover Book
USD 219.99
Price excludes VAT (USA)
  • Compact, lightweight edition
  • Dispatched in 3 to 5 business days
  • Free shipping worldwide - see info
Hardcover Book
USD 219.99
Price excludes VAT (USA)
  • Durable hardcover edition
  • Dispatched in 3 to 5 business days
  • Free shipping worldwide - see info

Tax calculation will be finalised at checkout

Purchases are for personal use only

Institutional subscriptions

Preview

Unable to display preview. Download preview PDF.

Unable to display preview. Download preview PDF.

References

  1. FP7 - cordis.europa.eu/fp7/

    Google Scholar 

  2. GEANT2 - www.geant2.net/

  3. EUMEDCONNECT2 - www.eumedconnect2.net/

  4. ALICE - alice.dante.net/server/show/nav.119

    Google Scholar 

  5. TEIN2 - www.tein2.net/server/show/nav.620

  6. PKI - www.pki-page.org/

  7. IETF-RFC 2459 - www.ietf.org/rfc/rfc2459.txt

  8. IGTF - www.igtf.net/

  9. Aladdin - www.aladdin.com/etoken/default.aspx

  10. M. Mirto, I. Epicoco, S. Fiore, M. Cafaro, G. La Rocca, et al. 2009.The LIBI Grid Platform - An International Laboratory for Bioinformatics Handbook of Research on Computational Grid Technologies for Life Sciences, Biomedicine, and Healthcare, vol.1, pp. 577-613, ISBN: 978-1-60566-374-6. Visit also the web site www.libi.it

  11. Andronico G., Barbera R., Falzone A., Lo Re G.,et al. (2003). GENIUS: a web portal for the grid. Nucl Instrument and Methods in Phy. Res.,433-436. Visit also the official GENIUS web site: https://genius.ct.infn.it/

  12. Barbera R, Falzone A, Ardizzone V, Scardaci D (2007). The GENIUS Grid Portal : Its Architecture, Improvements of Features, and New Implementations about Authentication and Authorization. Enabling Technologies: Infrastructure for Collaborative Enterprises. WETICE 2007. 16th IEEE International Workshops on. doi:10.1109/WETICE.2007.4407171

    Google Scholar 

  13. EnginFrame - www.enginframe.com

  14. NICE srl - www.nice-italy.com

  15. The EGEE Project - www.eu-egee.org

  16. Ronquist, F. and J. P. Huelsenbeck. 2003. MRBAYES 3: Bayesian phylogenetic inference under mixed models. Bioinformatics 19:, pp. 1572-1574.

    Article  Google Scholar 

  17. Altekar G, Dwarkadas S, Huelsenbeck JP and Ronquist F.2004 Parallel Metropolis coupled Markov chain Monte Carlo for Bayesian phylogenetic inference. Bioinformatics 20, pp. 407-415

    Article  Google Scholar 

  18. Maddison DR, Swofford DL, and Maddison WP. 1997 NEXUS: an extensible file format for systematic information. Syst Biol Dec; 46(4), pp. 590-621. pmid:11975335.

    Google Scholar 

  19. The gLite middleware - http://glite.web.cern.ch/glite

  20. De Sario G., Gisel A., Tulipano A., Donvito G. and Maggi G.P., 2009 High-throughput GRID computing for Life Sciences, in Mario Cannataro (Ed.), Handbook of Research on Computational Grid Technologies for Life Sciences, Biomedicine and Healthcare, IGI Global. Vol.1, pp.198-205 - Visit also the JST web site: webcms.ba.infn.it/cms-software/index.html/index.php/Main/JobSubmissionTool

    Google Scholar 

  21. The LITBIO Project - www.litbio.org

  22. The BioinfoGrid Project - www.bioinfogrid.eu

Download references

Author information

Authors and Affiliations

  1. Division of Catania, Italian National Institute of Nuclear Physics, Via S. Sofia 64, I-95123, Catania, Italy

    Roberto Barbera & Giuseppe La Rocca

  2. Department of Physics and Astronomy of the University of Catania, Viale A. Doria 6, I 95125, Catania, Italy

    Roberto Barbera

  3. Division of Bari, Italian National Institute of Nuclear Physics, Via E. Orabona 4, I-70126, Bari, Italy

    Giacinto Donvit & Giorgio Pietro Maggi

  4. NICE Srl, Via Milliavacca 9, I-14100, Asti, Italy

    Alberto Falzone

  5. Institute for Biomedical Technologies – CNR, Via Fratelli Cervi 93, I-20090, Segrate, MI, Italy

    Luciano Milanesi

  6. CNR – ITB Bari, Via Amendola 122D, I-70126, Bari, Italy

    Saverio VicarioICARIO

Authors
  1. Roberto Barbera
    View author publications

    You can also search for this author in PubMed Google Scholar

  2. Giacinto Donvit
    View author publications

    You can also search for this author in PubMed Google Scholar

  3. Alberto Falzone
    View author publications

    You can also search for this author in PubMed Google Scholar

  4. Giuseppe La Rocca
    View author publications

    You can also search for this author in PubMed Google Scholar

  5. Giorgio Pietro Maggi
    View author publications

    You can also search for this author in PubMed Google Scholar

  6. Luciano Milanesi
    View author publications

    You can also search for this author in PubMed Google Scholar

  7. Saverio VicarioICARIO
    View author publications

    You can also search for this author in PubMed Google Scholar

Editor information

Editors and Affiliations

  1. Grid Computing Center, Academia Sinica, Sec. Academia Road 128, Taipei, 115, Taiwan R.O.C.

    Simon C. Lin

  2. Grid Computing Center, Academia Sinica, Sec. Academia Road 128, Taipei, 115, Taiwan R.O.C.

    Eric Yen

Rights and permissions

Reprints and permissions

Copyright information

© 2010 Springer Science+Business Media, LLC

About this paper

Cite this paper

Barbera, R. et al. (2010). INFN, IT the GENIUS grid portal and the robot certificates to perform phylogenetic analysis on large scale: a success story from the International LIBI project. In: Lin, S., Yen, E. (eds) Managed Grids and Cloud Systems in the Asia-Pacific Research Community. Springer, Boston, MA. https://doi.org/10.1007/978-1-4419-6469-4_8

Download citation

  • DOI: https://doi.org/10.1007/978-1-4419-6469-4_8

  • Published:

  • Publisher Name: Springer, Boston, MA

  • Print ISBN: 978-1-4419-6468-7

  • Online ISBN: 978-1-4419-6469-4

  • eBook Packages: Computer ScienceComputer Science (R0)

Publish with us

Policies and ethics

Search

Navigation