Difference between revisions of "Database Interop Hackathon/Pre-Meeting"

From Evolutionary Informatics Working Group
Jump to: navigation, search
(Agenda)
(refactored agenda into a set of meeting notes)
Line 17: Line 17:
 
* Implementation details of the providers: which languages/libraries they use, what metadata they want to expose.
 
* Implementation details of the providers: which languages/libraries they use, what metadata they want to expose.
  
== Agenda ==
+
== Notes from meeting ==
  
'''Thu, Feb 19:''' Participants arrive.
+
=== Thursday, Feb 19 ===
 +
 
 +
Participants arrive.
 +
 
 +
=== Fri, Feb 20 ===
  
'''Fri, Feb 20'''
 
 
* 9-10am: Priorities, use-cases, documentation needs
 
* 9-10am: Priorities, use-cases, documentation needs
 
* 10-11.30am: Objectives, goals, and assessments (with Jonathon Cummings)
 
* 10-11.30am: Objectives, goals, and assessments (with Jonathon Cummings)
Line 33: Line 36:
 
** PhyloWS: Review of current spec against SRU (with Ryan Scherle).
 
** PhyloWS: Review of current spec against SRU (with Ryan Scherle).
  
'''Sat, Feb 21'''
+
=== Sat, Feb 21 ===
 
* 9.30am-12.30pm
 
* 9.30am-12.30pm
 
** Expression of metadata and metadata semantics in NeXML
 
** Expression of metadata and metadata semantics in NeXML
Line 46: Line 49:
 
* 5-6pm ''Dinner''
 
* 5-6pm ''Dinner''
 
* 6-8pm
 
* 6-8pm
** PURLs for CDAO: http://purl.org/phylo/cdao/
+
** Continuing expression of metadata in nexml using semantic ties to cdao
** [http://obi-ontology.org/page/Main_Page OBI] and its use for protocols
+
*** PURLs for CDAO: http://purl.org/phylo/cdao/
 +
*** representing EQ phenotypes as used in phenoscape
 +
*** [http://obi-ontology.org/page/Main_Page OBI] and its use for protocols
  
'''Sun, Feb 22'''
+
=== Sun, Feb 22 ===
 
* 9am-12pm
 
* 9am-12pm
** CDAO:
+
** Contining expression of metadata
 +
*** reworking reference
 +
*** oops, NESCent lost our changes from last night
 +
 
 
** NeXML: [[Future_Data_Exchange_Standard#Outstanding_issues|Outstanding issues]]
 
** NeXML: [[Future_Data_Exchange_Standard#Outstanding_issues|Outstanding issues]]
 
** PhyloWS:
 
** PhyloWS:

Revision as of 16:00, 22 February 2009

The core developers of NeXML, CDAO, and PhyloWS will meet two weeks prior to the hackathon to better prepare the participating emerging standards for actual application at the hackathon.

Goals & Targets

Guidelines:

  • Choose a very narrow limited set of goals, and include time to
    • evaluate carefully what we have done
    • extrapolate and plan for the big meeting when we have 20 people to keep busy
  • Need to discuss how to accommodate all the projects using php.

Target ideas:

  • Implement services that would allow Mesquite to query and retrieve character data and trees from TreeBase and from MorphBank.
  • Agreeing on how to implement semantic annotation of metadata types of the providers.
  • More fleshing out of PhyloWS specs.

Information to gather in advance:

  • Implementation details of the providers: which languages/libraries they use, what metadata they want to expose.

Notes from meeting

Thursday, Feb 19

Participants arrive.

Fri, Feb 20

  • 9-10am: Priorities, use-cases, documentation needs
  • 10-11.30am: Objectives, goals, and assessments (with Jonathon Cummings)
  • 12-1pm BBL seminar at NESCent by Arlin Stoltzfus & Rutger Vos
  • 1-3pm
  • Agenda and outline for conference call
  • Remote participation tools set up
  • 3-4pm: Teleconference with hackathon participants
  • 4-6pm: Continuing earlier work & wrap-up for the day
    • Information gathering form for data types for I/O and formats
    • PhyloWS: Review of current spec against SRU (with Ryan Scherle).

Sat, Feb 21

  • 9.30am-12.30pm
    • Expression of metadata and metadata semantics in NeXML
      • Representation of references
    • Re-using existing metadata vocabularies (such as DC)
  • 12.30-1.30pm Lunch
  • 1.30-5pm
    • Expression of metadata and metadata semantics in NeXML
      • Generalize the solution for representing references
      • Attaching GO terms to tree nodes
      • Linking OTUs to taxon identifiers and to specimen records
  • 5-6pm Dinner
  • 6-8pm
    • Continuing expression of metadata in nexml using semantic ties to cdao

Sun, Feb 22

  • 9am-12pm
    • Contining expression of metadata
      • reworking reference
      • oops, NESCent lost our changes from last night

Logistics

The pre-meeting takes place Friday - Sunday, Feb 20-22, 2009 at NESCent in Durham, North Carolina.

Participants

Participant Affiliation Email Standard
Brandon Chisham New Mexico State University bchisham@cs.nmsu.edu CDAO
Hilmar Lapp NESCent hlapp@nescent.org PhyloWS
Enrico Pontelli New Mexico State University epontell@cs.nmsu.edu CDAO
Arlin Stoltzfus NIST, U. Maryland arlin.stoltzfus@nist.gov CDAO
Rutger Vos University of British Columbia rutgeraldo@gmail.com NeXML, PhyloWS