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EUBrazilOpenbio Technologies

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EUBrazilOpenbio Technologies

  1. 1. The Technologies behindEUBrazilOpenBio Services and Tools Leonardo Candela National Research Council of Italy
  2. 2. Science as an Open Enterprise: some key sentences • “Rapid and pervasive technological change has created new ways of acquiring, storing, manipulating and transmitting vast data volumes, as well as stimulating new habits of communication and collaboration amongst scientists.” • R1: “Scientists should communicate the data they collect and the models they create, to allow free and open access, and in ways that are intelligible, assessable and usable for other specialists in the same or linked fields wherever they are in the world.”Recife, 19th Sep. 2012 EUBrazilOpenBio Technologies 2
  3. 3. The Technological Challenges • Nowadays science is posing “systems” engineers with challenging tasks: – highly-evolving requirements; – large scale resources and players distribution; – heterogeneity; • This makes standard development approaches often too expensive and not sustainable – “from-scratch” development of ad-hoc solutions – HW investment (even if intermittently needed) … infrastructures …Recife, 19th Sep. 2012 EUBrazilOpenBio Technologies 3
  4. 4. Infrastructure vs e-Infrastructures • Science has been traditionally based on infrastructures • e-Infrastructures are becoming popular gathering (computer) resources and exposing them to the scientific community through user-friendly interfacesRecife, 19th Sep. 2012 EUBrazilOpenBio Technologies 4
  5. 5. An Hybrid Data Infrastructure Approach • A facility where research resources (HW, SW, Data) can be shared and exploited on-demand • … built on existing systems, infrastructures and repositories • … conceived to supplement but not supplant “systems” mandates and arrangements • … supporting an innovative application-delivery- model Application Application Application #1 #2 … #N data server Hybrid Data Infrastructure service Infrastructure Infrastructure Infrastructure apps … /system A /system B /system ZRecife, 19th Sep. 2012 EUBrazilOpenBio Technologies 5
  6. 6. Supporting Virtual Research Environments A Virtual Research Environment is a complete “system” consisting of hardware, data, and applications deployed to support the needs of a community of practice and promoting an effective collaborationRecife, 19th Sep. 2012 EUBrazilOpenBio Technologies 6
  7. 7. Supporting Virtual Research Environments [cont.] A Virtual Research Environment is a complete “system” consisting of hardware, data, and applications deployed to support the needs of a community of practice and promoting an effective collaboration User uploads/selects apps EUBrazilOpenBio offers apps through a software repository User registers/selects data sets EUBrazilOpenBio offers a rich array of mediators interfacing with data sources User exploits most suitable resources EUBrazilOpenBio deploys, configures, executes and monitors services User invites co-workers EUBrazilOpenBio controls authentication and enforces policiesRecife, 19th Sep. 2012 EUBrazilOpenBio Technologies 7
  8. 8. Supporting two models of provision • For end-users – A GUI-centric approach focusing on visual interfaces for accessing Data Infrastructure facilities via a Web Browser • For service providers – An API-Centric approach focusing on comprehensive set specifications and methods for accessing Data Infrastructure facilities in a programmatic wayRecife, 19th Sep. 2012 EUBrazilOpenBio Technologies 8
  9. 9. EUBrazilOpenBio Infrastructure Current Constituents • Rely on existing European and Brazilian resources and efforts – Data Providers • CoL, speciesLink, Brazilian Flora, GBIF, PANGAEA, Biodiversity Heritage Library, Bioline International – Service Providers • D4Science, VENUS-C, COMPSs – Software Providers • gCube, openModeler, USTO.RE … * more will come from the community *Recife, 19th Sep. 2012 EUBrazilOpenBio Technologies 9
  10. 10. Data Discovery and Access Facilities • Conceived to accommodate existing data repositories “integration” and exploitation – beyond “data import” – by relying on standards and protocols (e.g. TAPIR, OAI-PMH) – aiming at reducing the costs of developing ad-hoc mediators – aiming at improving data providers service (e.g. caching, query expansion) • Support for a rich array of data and metadata formats – from files to tabular data and complex objects – information objects can be annotated with multiple metadata • Cater for efficient and scalable data storage • Offering unifying views over data coming from heterogeneous and distributed systemsRecife, 19th Sep. 2012 EUBrazilOpenBio Technologies 10
  11. 11. Data Processing Facilities • A comprehensive offering of computational approaches and facilities – different computational models and platforms • Simplifying the realisation of advanced services having computation-intensive needs (e.g. ENM service) • Hundreds of “computers” made available to the communityRecife, 19th Sep. 2012 EUBrazilOpenBio Technologies 11
  12. 12. What OpenBio can do for the Biodiversity Community now • Support for the deployment and operation of multiple VREs on demand • Amplifying data providers “markets” – E.g. by enlarging the set of data presentation “formats” • Support Taxonomies Integration by catering for – Effectively and easily comparing checklists – Extraction of checklists from multiple data sources – Enabling users to simply upload their checklists • Support Ecological Niche Modeling by catering for – modeling, testing and projection “as-a-Service”, directly from the web-browser. – retrieval of occurrence points from multiple data sources and visualisation – enabling users to use their own data – massive modeling activities by relying on distributed computing capabilities * live demonstration after the break *Recife, 19th Sep. 2012 EUBrazilOpenBio Technologies 12
  13. 13. Clips & Pointers • EUBrazilOpenBio Gateway portal.eubrazilopenbio.d4science.org *** Publicly available *** • Project Website www.eubrazilopenbio.euRecife, 19th Sep. 2012 EUBrazilOpenBio Technologies 13

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