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OGSA-DAI-RDF & Its Ontology Interfaces

RDF, Ontologies and Meta-Data Workshop at Uk e-Science Centre 8 th June, 2006. OGSA-DAI-RDF & Its Ontology Interfaces. Isao Kojima and Masahiro Kimoto Data Grid Team, Grid Technology Research Center http://www.dbgrid.org/ http://www.gtrc.aist.go.jp/ AIST （↓） ,Japan. Summary.

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OGSA-DAI-RDF & Its Ontology Interfaces

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  1. RDF, Ontologies and Meta-Data Workshop at Uk e-Science Centre 8th June, 2006 OGSA-DAI-RDF & Its Ontology Interfaces Isao Kojima and Masahiro Kimoto Data Grid Team, Grid Technology Research Center http://www.dbgrid.org/ http://www.gtrc.aist.go.jp/ AIST（↓）,Japan

  2. Summary Implementation of OGSA-DAI RDF Prototype Web(Grid) Service based access to RDF databases • SupportsRDFdatabase type to OGSA-DAI database middleware • RDF handling Activities including SPARQLquery processing • Supports Jena and Sesame • Supports RDFS/OWL • Ontology Interfaces implementation • Based on the Ontogrid’s WS-DAIO initial(old) Proposal Specs • Schema & Instance Handling Interfaces • Supports Jena • Supports RDFS/OWL • Current Status and Future Directions

  3. Approach • OGSA-based: Web Service Interfaces • Use of Globus Toolkit/WS-RF • Can be combined with other Grid tools (GRAM,MDS,…..) • Query Language (SPARQL) • W3C Standard Query Language for RDF • Multi-Platform approach • To support Jena, Sesame,,,,,,, (Oracle?) • OGSA-DAI: • Activity Framework • To combine RDF databases other data resources • XMLDBs, Relational DBs(and Files) • To achieve RDF database workflow programming • DataConversion, Data Transfer,( Web Services)

  4. OGSA-DAI • OGSA-DAI: http://www.ogsadai.org.uk/ • UK e-Science R&D project for grid DB middleware • Service-based Database Query and Integration • RDB:SQL (Oracle,PostgreSQL,MySQL,DB2,,,) • XML-DB: XPath and XQuery (Xindice,eXist,,,) • Integration tool OGSA-DQP for RDBs • Supports Grid Middleware • WS-RF(Globus Toolkit 4) • WS-I(OMII)

  5. RDF Activities OGSA-DAI-RDF: Set of RDF Processing Activities OGSA-DAI-RDF OGSA-DAI Activities: Set of Primitives for Data Processing Relational, XML, File Transfer, Data Conversion/Compression Not available for some version

  6. Implemented Activities (Platform Independent = All activity supports Jena and Sesame) Query (SPARQL) & Instance Level (Without ontology) Appoach • SPARQL QueryStatementActivity • W3C Standard SPARQL for Jena/Sesame • RDF Resource(triple)Management Activity • Create/Delete RDF triples,statements • RDF Collection(model)Management Activity • Create/Delete/List RDF databases(model,repository) • RDF BulkLoadActivity • Bulk loading functions of RDF triples • To achieve common Interface Pattern with Relational, XML-DBs. • 5. Ontology Interfaces • (based on the Ontogrid’s WS-DAIO initial(old) specs) • - Schema level Activity • - Instance level Activity

  7. OGSA-DAI-RDF demo(1): Multi-Platform Environment SPARQL GUI Query Interface for Jena/Sesame • Modified OGSA-DAI DataBrowser OGSA-DAI Data Service (WS-RF and WS-I) Sesame Result is SPARQL/XML Format Jena SPARQL Statement

  8. OGSA-DAI Activity Framework • RDF Activities can be combined with other OGSA-DAI Activities • Data Compression,Conversion and Transfer • Other database Resources (SQL-DB, XML-DB) • Activity Programming • Support of Workflow Programming • Simple Distributed Processing Site1: 1.SPAQL query result is converted with XLSTransform Activity 2. The converted data is send to site2 by deliverTo Activity Site2: 1.Data is received with delverfrom Activity 2.Triples are inserted into the temporary model by ResourceManagement Activity 3.Anthoer query is done for this temporary model

  9. Demo(2) : Distributed SPARQL Processing ( to show the power of OGSA-DAI Activity Framework) • Parallel & Synchronized Data Processing over 3 different sites can be programmed with this Framework

  10. Currently Supported Platforms • Jena and Sesame • RDF(S) and OWL for Jena • Middleware-> Depends on the Underlying Platforms • Operational Semantics • Functional Limitation • Supported Implementation Type • On DBMS(RDB as default) • On Memory (Jena) • On File (Sesame) Can be specified OGSA-DAI resource config file Dai.data.resource.type=RDF

  11. Function Summary

  12. SchemaActivity InstanceActivity Implemented Ontology Interface Activities • This is only a prototype based on the obsolete specs • To find the usefulness of these kind of interfaces • To get the feedbacks for the future ontology interface discussion • To explore the integrated architecture with Query interface and Ontology Interface • To be a candidate for the second GGF reference implementation Basic Ontology Handling Functions Parent/Child Ancestor/Descendant, Sibling,,,, Basic Instance Handling Functions Add/Remove Get/Has,,, Individual

  13. PerformDocumentExample: NCI Cancer Ontology • Import of NCI cancer ontology using the Activity Framework • Create a Model on RDB using RDF Collection(model)Management Activity • Get the data from the NCI site using the OGSA-DAI deliverFromActivity • Uncompress the file using the OGSA-DAI gZip Activity • Load the data with our RDF BulkLoad Activity Access Example of the Ontology <?xml version="1.0" encoding="UTF-8"?> <!-- (c) International Business Machines Corporation, 2002 - 2005.--> <!-- (c) University of Edinburgh, 2002 - 2005.--> <!-- See OGSA-DAI-Licence.txt for licencing information.--> <perform xmlns="http://ogsadai.org.uk/namespaces/2005/10/types"> <ontologySchemaManagement name="myActivity"> <getRelatedClassesfromData="rdb" className="http://www.mindswap.org/2003 cology.owl#Chemotherapy" lineageRelation="ancestor"> <entry>cancerOntology</entry> </getRelatedClasses> <outputStream name="myActivityOutput"/> </ontologySchemaManagement> </perform> NCI Cancer Ontology Get the ancestor of The class “Chemotherapy”

  14. GetClass HasClass GetRelatedClasses(ancestor) areClassesRelated(Parent?) Planned Applications Grid Database Integration with Ontology Clinical/Bioinformatics Integration (with U-Tokyo) AIST Geogrid Project (based on GEON) Execution Examples

  15. Feedbacks and Problems Specifications • Our system aims to cover OWL and RDF(S) • We think it is very convenient to cover them in a single framework. • First GGF DAIS specs for RDF will target RDF(S) • WS-DAI-RDF/Ont architecture should have some extensibility/compatibility for future OWL • Need to Synchronize R&D and the Spec Discussion • Must have some compatibility with W3C SPARQL Protocol • Security and Authorization: No idea at now Implementations • Jena: • Simple wrapping of Jena Ontology API • Sesame: • Each interface message is converted to the query representation • On top of the current OGSA-DAI-RDF query module • Our current approach is based on SPARQL, not SeRQL • Aims to be a yet another implementation of WS-DAI-RDF/Ont • Restricted with Sesame SPARQL implementation • Should wait for the future stable releases

  16. Current Implementation & Roadmap • Current Prototype OGSA-DAI-RDF Activities Query Interface=full function with basic updates Ontology interface= basic functions of WS-DAIO • Demo Server environment is already set-up • If you have OGSA-DAI 2.1 and download the configuration XML, you can access our demo site using SPARQL • Current config xsds will be downloadble soon. • June,2006. 1st Release (without ontology) Version 0.9 Ready to be released now. Re-designing the interface: Possible inconsistency with future releases. Almost no english document • Sep. 2006 or Nov. 2006 2nd Release Version1.0 with Stable Spec (with ontology interface????)

  17. Future Directions • Distributed & Scalability • Distributed Query Processing? • Combine with P2P Query Processing? (presented yesterday by A.Matono) We think the single site performance is already the matter of the DB vendors. Multi-site performance and optimization is our concern • Applications (related topic will be presented today by S.Mirza) • Resource Discovery & Management • Service Management for the Semantic SOA. • Database Integration (Geosciences, Clinical-bioinformatics) • Collaboration • DAIS-RDF/Ont Spec Discussions / Ontogrid Project (F2F will be tomorrow) • Semantic Web Group within AIST

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