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GLOBAL BIODIVERSITY INFORMATION FACILITY Éamonn Ó Tuama Senior Programme Officer, IDA 21 June 2011 WWW.GBIF.ORG Metadata publishing with the IPT.

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Presentation on theme: "GLOBAL BIODIVERSITY INFORMATION FACILITY Éamonn Ó Tuama Senior Programme Officer, IDA 21 June 2011 WWW.GBIF.ORG Metadata publishing with the IPT."— Presentation transcript:

1 GLOBAL BIODIVERSITY INFORMATION FACILITY Éamonn Ó Tuama Senior Programme Officer, IDA 21 June 2011 WWW.GBIF.ORG Metadata publishing with the IPT

2 Outline - Why metadata? - The GBIF EML profile - Metadata standards - Preparation of metadata - Where does the metadata go? - Preparing metadata using the IPT

3 Outline - Why metadata? - The GBIF EML profile - Metadata standards - Preparation of metadata - Where does the metadata go? - Preparing metadata using the IPT

4 ”Data Intensive Science” ”Fourth Science Paradigm” e-Infrastructure Reflection Group (European Strategy Forum on Research Infrastructures). Report on Data Management, November 2009. http://www.e-irg.eu/images/stories/publ/task_force_reports/dmtfjointreport.pdf ”Digital Data Deluge” The Fourth Paradigm: Data-Intensive Scientific Discovery http://research.microsoft.com/en-us/collaboration/fourthparadigm/contents.aspx high quality metadata for long term curation and use of datasets Key requirement : Why metadata?

5 William K. Michener, Meta-information concepts for ecological data management, Ecological Informatics, Volume 1, Issue 1, January 2006, Pages 3-7, ISSN 1574-9541, DOI: 10.1016/j.ecoinf.2005.08.004. (http://www.sciencedirect.com/science/article/B7W63- 4HJRS57-3/2/ea2e08412c6776456f540e66983546c0) Information about datasets deteriorates over time!

6 Why metadata? Metadata supports: - Discovery - Interpretation/Evaluation - Provenance - Quality - Fitness-for-use - Analytical re-use

7 Outline - Why metadata? - The GBIF EML profile - Metadata standards - Preparation of metadata - Where does the metadata go? - Preparing metadata using the IPT

8 Metadata Standards Ecological Metadata Language (EML) v2.1.1 http://knb.ecoinformatics.org/software/eml/

9 Metadata Standards Dublin Core http://dublincore.org/documents/dcmi-terms/

10 Metadata Standards Directory Interchange Format (DIF) http://gcmd.nasa.gov/User/difguide/difman.html

11 Metadata Standards ISO 19115/19139 Geographic Metadata ISO 19115: http://www.iso.org/iso/iso_catalogue/catalogue_tc/catalogue_detail.htm?csnumber=26020 ISO 19139: http://www.iso.org/iso/iso_catalogue/catalogue_tc/catalogue_detail.htm?csnumber=32557

12 Metadata Standards Natural Collections Descriptions (NCD) http://www.tdwg.org/standards/312/

13 Metadata Standards Federal Geographic Data Committee (FGDC) Biological Profile http://www.fgdc.gov/standards/projects/FGDC-standards-projects/metadata/biometadata/ An extension of the FGDC CSDGM (Content Standard for Digital Geospatial Metadata) * *

14 Metadata Standards Multimedia Resources Metadata Schema http://www.tdwg.org/charters/article/view/448/36

15 NAP ISO 19115 Attributes describing the metadata Components to describe the resource Source: http://www.fgdc.gov/standards/projects/incits-l1-standards-projects/NAP-Metadata/ napMetadataProfileV101.pdf/view

16 ISO 19115/19139 North American Profile of ISO 19139 http://www.fgdc.gov/standards/projects/incits-l1-standards-projects/NAP-Metadata/napMetadataProfileV101.pdf/view Several Resources available for crosswalk; transform; view EML to FGDC Biological Profile https://code.ecoinformatics.org/code/eml/trunk/lib/eml2tonbii/ # FGDC CSDGM to ISO Transform # FGDC CSDGM to ISO Crosswalk # ISO XML to HTML View: # FGDC BIO to ISO Transform # FGDC BIO to ISO Crosswalk http://www.ncddc.noaa.gov/technology/metadataandxml/view FGDC CSDGM ISO 19139 EML to ISO 19139 http://code.google.com/p/gbif-metadata/source/browse/trunk/metadata/src/main/resources/eml2iso19139.xsl Open source INSPIRE-compliant MD editor (multilingual functionality) http://www.inspire-geoportal.eu/EUOSME/

17 Metadata and Languages A Multilingual Metadata Catalog for the ILTER: Issues and Approaches. Vanderbilt, K.L., et al., Ecological Informatics, Volume 5, Issue 3, May 2010, Pages 187-193, doi:10.1016/j.ecoinf.2010.02.002 - Adopt a lingua franca, e.g., English -data publishers provide discovery level metadata in English; -full metadata in local language. - Just use local language with keywords from multilingual thesauri, e.g. GEMET, the GEneral Multilingual Environmental Thesaurus; 27 languages. http://www.eionet.europa.eu/gemet/ AGROVOC; agriculture, forestry, fisheries, food and related domains e.g., environment; 20 languages. http://www4.fao.org/agrovoc/default.htm Long term solution: multilingual ontologies - Issues? – additional burden; tools, metadata standards

18 Outline - Why metadata? - The GBIF EML profile - Metadata standards - Preparation of metadata - Where does the metadata go? - Preparing metadata using the IPT

19 GBIF EML Profile - Requirements gathering -GBIF Metadata Task Group http://www2.gbif.org/GBIF-MIFTG-Report.pdf -EML; ISO 19115; NCD; INSPIRE Directive http://community.gbif.org/mod/file/download.php?file_guid=10915http://community.gbif.org/mod/file/download.php?file_guid=10915; http://community.gbif.org/mod/file/download.php?file_guid=5656 http://community.gbif.org/mod/file/download.php?file_guid=5656 http://rs.gbif.org/schema/eml-gbif-profile/1.0/eml-gbif-profile.xsd - GBIF EML schema http://community.gbif.org/pg/groups/5258/gbif-metadata-networkhttp://community.gbif.org/pg/groups/5258/gbif-metadata-network/ - GBIF community site: metadata network - GBIF profile documentation http://links.gbif.org/gbif_metadata_profile_how-to_en_v1 http://links.gbif.org/gbif_metadata_profile_guide_en_v1

20 Outline - Why metadata? - The GBIF EML profile - Metadata standards - Preparation of metadata - Where does the metadata go? - Preparing metadata using the IPT

21 Preparing metadata - Metadata editors e.g., IPT; Spreadsheet template; Morpho; EUOSME - Scripting -Output directly from existing metadata database - transform from another metadata specification to EML - Editing XML directly -Validation essential

22 Outline - Why metadata? - The GBIF EML profile - Metadata standards - Preparation of metadata - Where does the metadata go? - Preparing metadata using the IPT

23 Where does the metadata go? http://metadata.gbif.org

24 Sources of Metadata GBIF Data Cache - Registered IPT installations - National/regional/organisation level catalogues - Thematic catalogues, e.g., OBIS Our approach: -no imposed metadata standard or preferred catalogue implementation for participants; -avoidance of lossy conversions in submitting metadata GBIF Participants External networks e.g., Knowledge Network for Biocomplexity (KNB)

25 GBIF metadata architecture GBIF Catalogue GBIF Registry EuroGEOSS Catalogue e.g., GBIF Node IPT Instance Catalogue e.g.,KNB GBIF Data Cache OAI-PMH Direct payload GBIF metadata catalogue specification: http://links.gbif.org/gbif_metadata_catalogue_specification.pdf

26 OAI-PMH l Open Archives Initiative Protocol for Metadata Harvesting l Providing a low-barrier mechanism for interoperability across distributed metadata repositories l Data providers expose metadata; Service providers consume metadata through a client application known as a harvester that issues OAI-PMH service requests over HTTP: 1. GetRecord 2. Identify 3. ListIdentifiers 4. ListMetadataFormats 5. ListRecords 6. ListSets 1. return individual record 2. retrieve information about repository 3. retrieve headers of records 4. return metadata formats available 5. return records from repository 6. retrieve set structure (groupings) of repository http://www.openarchives.org/pmh/ GBIF: role as harvester and provider

27 Outline - Why metadata? - The GBIF EML profile - Metadata standards - Preparation of metadata - Where does the metadata go? - Preparing metadata using the IPT

28 IPT metadata editor - Preparing metadata according to GBIF EML profile - specimens/observations - names (checklists) - other (e.g., ecological data) - derived products (e.g., species distribution maps) - Data set level metadata - Output as part of DwC-A zip file (EML.xml) - Metadata for published and unpublished data sets

29 How to contact GBIF: Web site: www.gbif.org Data portal: data.gbif.org GBIF Secretariat Universitetsparken 15 2100 Copenhagen Denmark E-mail: info@gbif.org Phone: +45 3532 1470 Fax: +45 3532 1480

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