Difference between revisions of "SDIWG:Action Items 20081203"
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Revision as of 13:46, 16 December 2008
Home < SDIWG:Action Items 20081203Go back to top level of Resourcome working group discussion pages http://na-mic.org/Wiki/index.php/SDIWG:_NCBC_Resource_Yellow_Pages_and_Software_Ontologies
Action Items (2008-12-03):
- Unify API(s)
- Csongor: I started working on the "Lightweight API", i.e. the REST web services that will process biositemaps and will return an XML representation that can be consumed by iTools...
- Beth: I've started working on a 'consumer' api that locates and queries biositemaps... (http://appserver.ctaalliance.org/~bkirschn/biositemaps/index.html)
- The Stanford/NCIBI Biositemap APIs provide complimentary functionality and should be merged
- Csongor's RDF-to-XML webservice provides expected/needed functionality for iTools to consume current RDF biositemaps
- Action Items:
Csongor's software project (https://bmir-gforge.stanford.edu/gf/project/biositemaps/scmsvn/) is password protected(use 'anonymous' for username and an empty password)- Beth & Csongor: work on merging apis (complimentary functionality) upon his return from Australia (week of Dec. 15)
- Document knowledge of Google access to Biositemaps corpus and other access issue (DONE)
- Biositemaps registry at http://www.ncbcs.org/biositemaps/biositemap.registry (with email to register new biositemaps url) is acceptable in the short-term; long-term we should find a more scalable solution (currently Google & Yahoo search engines do not provide reliable indexing of biositemaps rdf files)
- Agree on official location of BRO and IM and easily accessible functions to download them (DONE)
- bioportal is official location of BRO & biositemaps.org is official location of IM
- Action Items:
Natasha: provide a virtual url that will always point to the latest version of the BRO(done)Beth: Update biositemaps web site with virtual url(done)
- Finalize process for backward compatibility of BRO and IM (deprecation etc...)
- 1. Software needs to be flexible (graceful handling of undefined classes)
- 2. New Policy: don't delete classes and move to deprecated sub-tree (annotate with a recommended valid class)
- Action Items:
Beth: Document policy on biositemaps webpage(done)- Csongor: Update API & Biositemaps Editor to allow invalid classes
- Get back to NCBC liaisons and (i) generate full corpus of NCBC biositemaps and (ii) expose biositemaps consistently to the Internet according to practices that Beth will disseminate
- Action Items:
- Beth & Peter: follow up with NCBC centers to publish & update biositemaps (note I2B2 & CCB use deprecated classes that need to be updated)
- Action Items:
- Get iTools to consume biositemaps corpus
- Csongor's XML-to-RDF web service provides Ivo needed functionality. Both Beth and Csongor's API use 13-14 MB in jars, so the only way to avoid this overhead is to parse the serialized XML version of the biositemaps from this service.
- Action Items:
Ivo: will provide email describing documentation needed for iTools to consume current biositemaps corpus(done)Beth: Update biositemaps website with provided documentation(done)- Ivo: Update iTools application to consume new biositemaps RDF files via RDF-to-XML web service
- Get BioPortal to consume biositemaps corpus
- There are problems with the database or bioportal that need to be resolved in order to expose NCBC resources on bioportal
- Action Items:
- Natasha: will email group when problems are resolved
- Modify the BioPortal to index biositemaps corpus over more than BRO
- Action Items:
- Beth: will clarify who will develop biositemaps search application following CTSA call regarding BRO/IM harmonizing
- Action Items:
- Modify Biositemaps Editor to support multiple resource types
- Action Items:
- Csongor: to be done early next year (January 2009)
- Action Items: