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Pilot and Preview on “ CODS ” – a Collaborative Ontology Development Service & Infrastructure

Learn about CODS, a service facilitating ontology development for Semantic Interoperability. Discover Protégé tools, infrastructure, and collaborative features. Explore CODS software and hosting infrastructure in detail.

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Pilot and Preview on “ CODS ” – a Collaborative Ontology Development Service & Infrastructure

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  1. Pilot and Preview on “CODS” – a Collaborative Ontology Development Service & Infrastructure To: the Government Semantic InteroperabilityCommunity of Practice (SICoP) by Peter Yim (CIM3) & Mark Musen (SMI) September 14, 2005 – MITRE, McLean, VA ( v 1.23 )

  2. Introduction • Stanford Medical Informatics- developer of Protégé • An open-source ontology tool platform • Comprehensive OWL / RDF / Reasoning support • Active community with thousands of users (33,000+ registrations) • Has been used to edit ontologies with tens of thousands of concepts • CIM3 – the ISP for CWEs(Collaborative Work Environments) • Mission: to enable more effective distributed collaboration and virtual enterprise through bootstrapping collective intelligence over the Internet • Products/Services: providing a robust CWE infrastructure that enables high performance distributed project teams, virtual enterprise partners and communities of practice to work • Host to the Ontolog-Forum – an international CoP focusing on the practical issues of both formal and informal ontologies, and their adoption into mainstream application through standardization

  3. The Team Up • SMI & CIM3 – to develop and host an open Collaborative Ontology Development Service (CODS) and Ontology Repository for all • the initial CODS team: • Mark Musen, Ray Fergerson, Natasha Noy, Jonathan Cheyer and Peter Yim; with the support of their colleagues at Stanford Medical Informatics (SMI) and CIM Engineering, Inc. (CIM3)

  4. Protégé – Ontology & Knowledgebase Editor

  5. Software Featured in CODS • Protégé Multiuser Server • RDBMS backend (Oracle or MySql) • PomptTAB (Protégé plugin) • Subversion server & client (TortoiseSVN client for Windows) • Apache web server & WebDAV server • Linux platform • Augmentation of the team collaboration with the CWE suite of open source collaboration tools (for portal, archived discussion, wiki & file-sharing workspace)

  6. Hosted Infrastructure • Product features: • CWE – “open”, “community-only” & “secured” • Robust, scalable, enterprise performance • Secured and Fault Tolerant • Platform neutral (PC’s, Mac’s, Linux, Unix, …) • Infrastructure: • Tier-1 hosting facility • 100Mbps bandwidth into the Internet backbone • Backbone: multiple OC48 & Gige self-healing fiber-ring

  7. Our Hosting Facility

  8. An Augmented Approach • We combine the strengths of both the Protégé ontology tools platform, and CIM3’s infrastructure to provide a collaborative ontology development environment for both humans and machines, optimizing between (sometimes conflicting) objectives like: • Human expressiveness vs. machine rigor • Average user vs. power user expectation • Secured system vs. open system • Transaction system vs. groupware system behavior • Our intent is to foster shared understanding and learning • We are trying to spur innovation, as well as organic or emergent behavior in the user communities and teams

  9. Software Featured in CODS • Protégé Multiuser Server • RDBMS backend (Oracle or MySql) • PomptTAB (Protégé plugin) • Subversion server & client (TortoiseSVN client for Windows) • Apache web server & WebDAV server • Linux platform • Augmentation of the team collaboration with the CWE suite of open source collaboration tools (for portal, archived discussion, wiki & file-sharing workspace)

  10. Protégé Multiuser Server Login

  11. Select Project

  12. Metaproject Instances

  13. Software Featured in CODS • Protégé Multiuser Server • RDBMS backend (Oracle or MySql) • PomptTAB (Protégé plugin) • Subversion server & client (TortoiseSVN client for Windows) • Apache web server & WebDAV server • Linux platform • Augmentation of the team collaboration with the CWE suite of open source collaboration tools (for portal, archived discussion, wiki & file-sharing workspace)

  14. Protégé – convert to format

  15. Connecting to the Oracle backend

  16. Connecting to the MySql backend

  17. Software Featured in CODS • Protégé Multiuser Server • RDBMS backend (Oracle or MySql) • PomptTAB (Protégé plugin) • Subversion server & client (TortoiseSVN client for Windows) • Apache web server & WebDAV server • Linux platform • Augmentation of the team collaboration with the CWE suite of open source collaboration tools (for portal, archived discussion, wiki & file-sharing workspace)

  18. Configure PromptTAB(1)

  19. PromptTAB (2)

  20. Prompt: Comparing versions

  21. Prompt displays: Properties that were Added Deleted Changed Old and new values for properties Examine class changes

  22. The lead editor can accept or reject changes For each property For a class as a whole For a subtree All changes by a specific user All changes to classes with no conflicts Accept and Reject Changes

  23. Software Featured in CODS • Protégé Multiuser Server • RDBMS backend (Oracle or MySql) • PomptTAB (Protégé plugin) • Linux server platform • Augmentation of the team collaboration with the CWE suite of open source collaboration tools (for portal, archived discussion, wiki & file-sharing workspace) • Apache web server & WebDAV server • Subversion server & client (TortoiseSVN client for Windows)

  24. CODS – file structure(v1.45)

  25. Subversion Repository Access

  26. Subversion Checkout

  27. Use case Scenarios • Small/medium size ontology development project • user/team registers project with CODS-Admin and uploads seed ontology • CODS-Admin opens collaborative project on Protégé multiuser server • user/team collaboratively develops ontology and commits it to the subversion repository • Publishes /releases ontology (via CODS-Admin) • Large scale ontology project (similar to above, but…) • dedicated review/accept process (through a lead editor) • probably also a full-time project manager or project administrator who will also be responsible for version and release control

  28. New baseline version produced every month Multiple editors start with the baseline and edit it in Protégé in multiuser mode Prompt compares the current baseline to the new version produced by editors Lead editor accepts or rejects changes New baseline is produced A use caseNCI Thesaurus: Collaborative editing

  29. What Next? • Pilot projects welcome • Further refinement of process • Funding solicited to support the development of both the open source tools and the infrastructure • Skills & expertise in software engineering welcome • Skills & expertise in ontological engineering welcome • Formation and participation of a community to carry this project forward Please email: Peter Yim peter.yim@cim3.comor Mark Musen <musen@smi.stanford.edu>

  30. Questions ?

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