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ISMB 2009 Demo Introduction

by BioCatalogue

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Introduction slides for the BioCatalogue demo at ISMB 2009.

Introduction slides for the BioCatalogue demo at ISMB 2009.
Presented by Franck Tanoh and Jiten Bhagat

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‘Web applications that interact with other web applications for the purpose of exchanging data’
We’ve built a catalogue for all of this… Cost Licensing
Who are the stake holder?
Automated monitoring & testing Test scripts, endpoint availability, meantime failure Partner feeds myExperiment.org Workflow profile Update feeds to users Develop incentives Expert for oversight How do we rank? How do we compare non-alike?
User management Registration of individuals using user/group registration model available in myExperiment/Wiki Identity managementManagement of identity life-cycle for entities (subjects or objects) Account managementCentralised administration as per myExperiment/Wiki AMS User profileSubject management of individual profiles Metadata annotation Data model; 4 levels of completeness (bronze, silver, gold and platinum) FunctionWeb Service operational description OperationDescription of operations, methods/actions Conditions of UseIf required, to describe usage limitations, etiquette, contract and licensing ProvenanceDescription of the service(s) hosting server Community StandingAnnotation (submitter/community) of institutional service host Operational MetricsLevel of Service, Availability, Q&A OntologymyGrid Ontology Service Submission Single and multiple (batch) submission of service. Only registered users are allowed to submit services. Service typesSOAP Service versionsAs services get re-developed or remodelled Service instancesMultiple instance of same, mirror or equivalent services geographically distributed sites Submission dashboardFigure X – Service submission interface allowing checking for duplications. Intuitive displays of available service information and cueing for descriptors that may be incomplete or missing. Applies to the qualification of annotation standards described in the metadata section. Ability to preview submission before committing to the back-end database. Service Curation TaggingKeyword-base curation driven by controlled vocabularies and ontologies. Service popularity quantification tagging. Community driven. WSDL parsingParsing of the Web Service Description Language services operational descriptions file. This will expose methods/action and their corresponding inputs and outputs in human readable descriptions Service Monitoring Interface monitoringChecks for consistency and change-tracking Availability monitoringChecks for service availability. Simple operational tests. QoS monitoringChecks for consistency, robustness and long-term availability of services. 3rd Party AggregationChecks for pipe-line and workflow integrity Service Discovery Simple/Advanced searchFull-text term searching. Available via the portal. Also to be made available via EB-eye and Google. Search of services matching free-text strings, filtering by date, type, provider, functionality, categories, tags and technologies. Tag searchSearch via tags – driven by annotation via ontologies (see above). RecommendationsBest-practise recommendation for service tagging and annotation to enable efficient and consistent searching across service types and service groups. Notification via RSS feeds (new and updated services, important service changes, status, BioCatalogue functionality, etc.) BrowserAmazon-like browsing interface with the capability to view details of services of interestSystem integration[with myExperiment? to complete] REST APIProgrammatic and non-programmatic access to service resources through URIs and HTTP verbs. Open SearchEnable addition of the BioCatalogue as a search engine in browsers that can handle the open search formatUse OpenSearch format as one of the formats for returning search queries myExperimentServices from BioCatalogue displayed in myExperiment so users of myExperiment can browse them. This includes a “Latest Services” and “Updated Services” list. Services within workflows in myExperiment reference the appropriate services in BioCatalogue so users can click through to the information in BioCatalogue.

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Jiten Bhagat, Software Developer at University of Manchester 2 years ago

ISMB 2009 Demo Introduction Presentation Transcript

http://www.biocatalogue.org ISMB, 01 July 2009 Franck Tanoh Jiten Bhagat University of Manchester, UK
- Public, curated catalogue of Life Science Web Services
- Register, find, curate Web Services
- Share with the community, your colleagues or yourself
- Web 2.0 site and development
- REST API
- Open source code base
The BioCatalogue…
Who?
Web Services?
- A component that you send some inputs to
- and get some output over a network
- Web services from different location can be used together
- Platform independent
Why?
- Guesstimate 3000+ Web Services in Life Science publicly available
- Where…
can I find them? advertise?
- What…
do they do? Can I use them? the cost? the licenses?
- How…
do they work? up to date?
- Who…
provides them? recommends them?
Stakeholders
- Service providers
- advertise service
- help with monitoring
- Users
- find, use services
- Curators
- professional, community, you!
- Tool developers
- use the BioCatalogue in their application
Content
- Community contributed
- Sourced from partners and registries
- Curators
Curation
- Free text,
- Tags, controlled vocabulary
- Automated WSDL ripping and analytics
- Automated monitoring & testing
- Partner feeds (e.g. myExperiment)
Let’s see Demo
- Easy submission of services
- Easy discovery of services
- Better visibility of services
- Bringing service providers, curators members, users together
- Attribution
- Combining subjective, objective, measurable, social and automated information and metrics
Alternative interfaces
- OpenSearch
- iGoogle
- Facebook
- Taverna
- myExperiment
- … and yours?
Users Services Curation Monitoring Integration test scripts REST API Open Search myExperiment Instances and versioning QoS feeds notification ratings recommendations Identity management Content Provider engagement Policy identification Taverna Ownership account management BioMoby DAS Next? Curation tools Google gadget RSS/ATOM Try it first Level of curation Feedback providers curators More services Internal messaging www.biocatalogue.org wiki
Get Involved
- Users oriented project
- Join our friend’s list: www.biocatalogue.org/wiki
- Contact us: [email_address]
Credits Thomas Laurent Hamish McWilliams Franck Tanoh Jiten Bhagat Carole Goble Steve Pettifer Katy Wolstencroft Robert Stevens David De Roure Rodrigo Lopez Eric Nzuobontane
www.biocatalogue.org