GBIF web services for biodiversity data, for USDA GRIN, Washington DC, USA (2005)
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Presentation of GBIF and the sharing of biodiversity data with web services. USDA GRIN Beltsville Washington DC, 13th December 2005. GBIF is the Global Biodiversity Information Facility for free and open access to biodiversity data.
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GBIF web services for biodiversity data, for USDA GRIN, Washington DC, USA (2005)
- 1. Presentation of GBIF and sharing of biodiversity data with Web Services December 13, 2005 USDA, Beltsville Dag Terje Filip Endresen – The Nordic Gene Bank, IPGRI
- 24. Example of a service response
- 26. Regular SOAP message Information intended for the recipient is written in the body . Such as Remote Procedure Call information, XML messages, or error messages. The header contains additional information on the SOAP message . Such as digital signature information, transaction information, and routing information. The SOAP envelope consists of a header and a body.
- 27. Communication protocol Although SOAP does not depend on the underlying communication protocol, HTTP is usually used. Because of this, it is possible to communicate with Web services protected by firewalls.
- 28. Data warehouse model (Slide by Samy Gaiji, IPGRI)
- 29. Decentralized model (Slide by Samy Gaiji, IPGRI)
- 36. Kepler workflow example - GARP
Editor's Notes
- * Spiders-web, photographer: Ian-Britton [http://www.freefoto.com/preview.jsp?id=01-17-1&k=Spiders+Web]
- Photo: IRRI genebank. Los Banos, Philippines [http://www.cgiar.org/images/irrigenebank1.jpg], VIR seed collection. St. Petersburg. Photographer Eva Thörn (NGB Picture Archive, image 001319).
- * IRRI genebank. Los Banos, Philippines [ http://www.cgiar.org/images/irrigenebank2.jpg] * Text formulation source [http://www.bgbm.org/TDWG/CODATA/ABCD-Evolution.htm] wording above is modified.
- * Multi-crop Passport Descriptors (MCPD) [http://www.ipgri.cgiar.org/publications/pdf/124.pdf] F AO (Food and Agricultural Organization of the United Nations) - IPGRI (International Plant Genetic Resources Institute). This is a revised version (December 2001) of the 1997 MCPD List. * FAO World Information and Early WarningSystem ( WIEWS) [http://apps3.fao.org/wiews/] * 19 Plant Uses Categories based on categories developed for the Working Group on Taxonomic Databases (TDWG) (Cook, Frances E.M., 1995. Economic Botany: Data Collection Standard. Royal Botanic Gardens Kew). [ http://www.ecpgr.cgiar.org/epgris/Training/MCPD-1998.doc] * The mapping of MCPD to ABCD was started in 2004 by Helmut Knüpffer and Walter Berendsohn, and finalized by Javier de la Torre and Dag Terje Filip Endresen in 2005. [ http://ww3.bgbm.org/MCDPH]
- * IPGRI Descriptors lists [http://www.ipgri.cgiar.org/system/page.asp?frame=programmes/inibap/home.htm] (119 descriptor lists, 2005) * MCPD [http://www.ipgri.cgiar.org/publications/pdf/333.pdf] * UPOV - International Union for the Protection of New Varieties of Plants (UPOV) [ http://www.upov.int/] * UPOV - The International Union for the Protection of New Varieties of Plants or UPOV (French: Union internationale pour la protection des obtentions végétales) is an intergovernmental organization with headquarters in Geneva, Switzerland. [http://en.wikipedia.org/wiki/UPOV] * COMECON - The Council for Mutual Economic Assistance (COMECON / Comecon / CMEA / CEMA), 1949 – 1991, was an economic organisation of communist states and a kind of Eastern European equivalent to the European Economic Community. The military counterpart to the Comecon was the Warsaw Pact. [http://en.wikipedia.org/wiki/Comecon]
- * Illustration: Corn earworm pupae that will be used to produce control parasites for release in the field. Photo by Scott Bauer. [http://www.ars.usda.gov/is/graphics/photos/k5554-2.htm] * UBIF is an attempt to define a common foundation for several TDWG/GBIF standards like SDD (see SDD WIKI), ABCD (see ABCD content schema homepage) or TaxonConceptNames (see Taxonomic Concept Transfer Schema WIKI). * Unified Biosciences Information Frameword (UBIF) XML schema for data exchange and integration across knowledge domains. The schema has been design for biological data, but is applicable to other knowledge areas as well. It is based on work of the TDWG SDD and ABCD subgroups and currently jointly authored by the SDD, ABCD, TaxonName subgroups and by GBIF (Global Biodiversity Information Facility). The framework may be used without changes for new schemata, no registration is necessary. * Complex Types are part of the UBIF infrastructure (TDWG common complex type for several schemas, ABCD, SDD, TCS, Lnnean Core, etc.)
- * The mapping of MCPD to ABCD was started in 2004 by Helmut Knüpffer and Walter Berendsohn, and finalized by Javier de la Torre and Dag Terje Filip Endresen in 2005. [ http://ww3.bgbm.org/MCDPH]
- * IPGRI Descriptors lists [http://www.ipgri.cgiar.org/system/page.asp?frame=programmes/inibap/home.htm] (119 descriptor lists, 2005) * MCPD [http://www.ipgri.cgiar.org/publications/pdf/333.pdf] * UPOV - International Union for the Protection of New Varieties of Plants (UPOV) [ http://www.upov.int/] * UPOV - The International Union for the Protection of New Varieties of Plants or UPOV (French: Union internationale pour la protection des obtentions végétales) is an intergovernmental organization with headquarters in Geneva, Switzerland. [http://en.wikipedia.org/wiki/UPOV] * COMECON - The Council for Mutual Economic Assistance (COMECON / Comecon / CMEA / CEMA), 1949 – 1991, was an economic organisation of communist states and a kind of Eastern European equivalent to the European Economic Community. The military counterpart to the Comecon was the Warsaw Pact. [http://en.wikipedia.org/wiki/Comecon]
- Quality counts: Chemist Gary List checks soybeans. Photo by Keith Weller. [ http://www.ars.usda.gov/is/graphics/photos/k5256-2.htm]
- Photo: PICT0173.jpg Sub-section from Whale Safari to Kaikoura New Zealand. Photo Dag Terje Filip Endresen [http://r142b.ngb.se/ngb/2004-10-New-Zealand-Australia/index.php?offset=79&size=medium&stp=1]
- The text formulation above is edited from various sources – on search hits with google.
- * W3C Web Services Glossary. W3C Working Group Note 11 February 2004 [http://www.w3.org/TR/ws-gloss/] * Spiders-web, photographer: Ian-Britton [http://www.freefoto.com/preview.jsp?id=01-17-1&k=Spiders+Web] * Copyright statement “feel free to use any of the images on the site if you are a private individual and your use is not commercial” [http://www.freefoto.com/browse.jsp?id=99-5-0]
- Perhaps this slide is too much ... ? * WS-Security : The Web Services Security protocol has been accepted as an OASIS standard. The standard allows authentication of actors and confidentiality of the messages sent. (taken out to simplify the slide...)
- Slide by Samy Gaiji, from presentation on: “ Information Networking - Challenges for the Plant Genetic Resources Communities, 2004.
- Slide by Samy Gaiji, from presentation on: “ Information Networking - Challenges for the Plant Genetic Resources Communities, 2004.
- Some examples to use...? * http://www.xmethods.com * http://www.xmethods.com/ve2/ViewListing.po;jsessionid=tYR5gLa3iESq9FYCW1m1IqHo(QHyMHiRM)?key=uuid:57D835E5-B4A5-4C4A-38E8-37E964100CF8 * http://services.bio.ifi.lmu.de:1046/prothesaurus/