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Information Management
using
Ecological Metadata Language
Corinna Gries - CAP
Margaret O’Brien - SBC
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Goal
To provide the ecological community with an extensible, flexible metadata standard
for use in data analysis and for use in data analysis and archiving that will allow
automated machine processing, searching and retrieval.
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Ecological Metadata Language - EML
• Introduction– Purpose, Structure, Content
• Management– Editors, Databases, Creation, Maintenance
• Uses– Web Display, Data Access, Data Conversion,
Data Integration
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Introduction
• Dublin Core Metadata Initiative • Federal Geographic Data Committee (FGDC)
– Content Standard for Digital Geospatial Metadata (CSDGM) – Biological Profile of the CSDGM (from the NBII)
• International Standards Organization – Geographic Information Standard (ISO 19115)– Date and Time Standard (ISO 8601),
• OpenGIS Consortiums (GML) • Scientific, Technical, and Medical Markup Language (STMML) • Extensible Scientific Interchange Language (XSIL).
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Introduction
http://knb.ecoinformatics.org/software/eml/http://en.wikipedia.org/wiki/XML
http://intranet.lternet.edu/archives/documents/Newsletters/DataBits/03spring/#6fa
• XML-based storage and transfer of metadata
• EML content standard focuses on metadata for identification, analysis, and integration
• accommodates geospatial and non-geospatial data
• strong data typing
• strong access and revision control
• distinction between logical format and physical format
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Introduction
Resource– Dataset– Literature– Software– Protocol
Party, Coverage, Keywords, Access, Physical, Project, Methods
Structure
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Introduction
<creator id="pers-1" system="FLS"><individualName>
<salutation>Dr.</salutation><givenName>Joe</givenName><givenName>T.</givenName><surName>Ecologist Jr.</surName>
</individualName><organizationName>FSL LTER</organizationName><address>
<deliveryPoint>Department for Ecology</deliveryPoint><deliveryPoint>Fictitious State University</deliveryPoint><deliveryPoint>PO Box 111111</deliveryPoint><city>Ficity</city><administrativeArea>FI</administrativeArea><postalCode>11111-1111</postalCode>
</address><phone phonetype="voice">(999) 999-9999</phone><electronicMailAddress>[email protected]</electronicMailAddress><onlineUrl>http://www.fsu.edu/~jecologist</onlineUrl>
</creator>
Structure
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Introduction
• EML Best Practices
http://cvs.lternet.edu/cgi-bin/viewcvs.cgi/emlbestpractices/
• Annotation Language (SEEK)
http://seek.ecoinformatics.org/
Content
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Management
• XML Spy• Oxygen• JEdit
• Morpho (EML) (NCEAS)
• MetaDoor (FGDC) (Carolina Ocean Observing and Prediction System)
• Esri ARCGIS (Esri, FGDC)
Editors
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Management
• Morpho• RDBMS • Reverse Engineering • Excel Conversion• Scripts
Creation
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Management
• Metacat• RDBMS
• Native XML– Open Source, e.g. eXist– Commercial, e.g. Tamino
Databases
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ManagementMetacat Features
• Contributors:
NCEAS, Texas Tech, LTER, SDSC• Can hold any XML document• Client API available in Java and Perl • Tables stored in relational database (postgres,
oracle, mysql)• Replication• XML queries converted to SQL
http://knb.ecoinformatics.org/software/metacat/
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Management
• Revision included in the packageId• Manual (Morpho)• Scripted
Maintenance
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Uses
Web Display
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Uses
Web Display
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Browse Results
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Dataset View
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Uses
Data Access
• Kepler• Trends Project• Xylopia
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Uses
Data Access: Kepler
Ilkay Altintas and Efrat Jeager @ San Diego Supercomputer Center, UCSD
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Uses
Data Access:Xylopia
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Uses
Data Access:Outreach
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Uses
Data Conversion
• PTAH creating scripts for statistical programs from EML
http://intranet.lternet.edu/archives/documents/Newsletters/DataBits/06spring/#9fa
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Uses
Data Integration
• Unit Dictionary • Kepler: Annotation Language• Cross Site Projects