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| - *** Taxon (Kennedy (TCS), Peet (ConceptMapper), Stewart (TOS)) |
| + *** Taxon (Kennedy) |
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| - * 10:45 to 12:00 EcoGrid |
| - ** Overview of incomplete tasks (Jones) |
| + |
| + * 10:45 - 12:00 Data Integration as 2006 goal |
| + ** Merging data sets tagged with taxonomic concepts (Peet, 15 minutes presentation) |
| + ** Discuss Taxon/SMS/Kepler Integration |
| + *** How can and should these subprojects work together to solve the data integration problem? |
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| + ** Synthesis Center demo at SDSC, 30 minutes (see [http://syncenter.org]) |
| + |
| + * 1:00 pm - 5:30pm |
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| + ** Overview of incomplete tasks (Jones) |
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| - ** Taxon Breakout (Beach) |
| - *** Concept data discussion with NESCENT and CIPRES reps |
| - *** Any remaining sub-project updates |
| + *** Ontology-based searching in EcoGrid |
| + |
| + ** Taxon Breakout (Beach) [Taxon Breakout| AllHandsMeeting2005TaxonAgendaAndNotes] |
| + *** Laura Downey, Going Forward Presentation from Estes Park |
| + *** Xianhua Liu, Concept Mapping and authoring tool: review of prototype |
| + *** Martin Graham, Collections visualization tool: review of prototype |
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| - * 7:00pm __Group Dinner__, Location TBD |
| + |
| + * 7:00pm __Group Dinner__, Location: Rock Bottom |
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| - ** [Kepler breakout| AllHandsMeeting2005KeplerAgenda] |
| - ** Taxon Breakout |
| - *** Kepler complete work flow discussion (see Franz, Liu, Peet, 29 Sept. doc) |
| + * 8:30 am - 12:00 pm |
| + ** 8:30 Joint Session |
| + ** 9:30 [Kepler breakout| AllHandsMeeting2005KeplerAgenda] |
| + ** 9:30 [Taxon Breakout| AllHandsMeeting2005TaxonAgendaAndNotes] |
| + *** Taxon-Kepler Interaction Design and Engineering Discussion with Dan Higgins |
| + **** Use case 1: GARP |
| + **** Use case 2: Biodiversity |
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| + ** SEEK-Taxon/CIPRES Project Lunch, Franz, Stewart, Gales with Miller, Jin, Lucie): Common ground |
| + * 1:00 pm - 5:30 pm |
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| - ** Taxon Breakout |
| - *** Extracting concepts from online sources (Susan, Aravind) |
| - *** Usability thread: bat project (Laura) |
| + |
| + ** [Taxon Breakout| AllHandsMeeting2005TaxonAgendaAndNotes] |
| + *** Extracting taxonomic concepts from online taxonomic literature update (Susan Gauch, Aravind) |
| + *** TOS Concept Data batch acquisition: roadblocks and options (All) |
| + *** Status and review of Usability process:(Laura Downey powerpoint presentation) |
| + *** Proposed May 2006 EOT Hands-On Workshop, Discussion, Deanna Pennington, Jim Beach |
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| - ** Semantic Mediation Breakout |
| - *** Merging data sets tagged with concepts (Jones, Peet) |
| - *** Knowledge Representation |
| - **** Overview of progress on ontologies |
| - ***** Discussion of ontology work to be done |
| - ** Taxon Breakout |
| - *** Update of EML to accomodate Taxon Concepts (Peet, Franz, Jones). |
| - *** May 2006 Taxon-oriented SEEK workshop, NM (with Deana) |
| - *** Future Plans: events, objectives, deliverables |
| + * 8:30 am - 12:00 pm |
| + ** Knowledge Representation / Annotation Breakout |
| + *** Overview of charge (Schildhauer, 15 minutes + 15 minutes discussion) |
| + *** GrOWL ontology editor (Krivov, 15 minute presentation + 15 minute discussion) |
| + *** Status of existing ontologies (Madin, 30 minutes presentation + 30 minutes discussion) |
| + * 10:30-10:45 __Break__ |
| + *** Ontologies in Kepler |
| + **** Storing and Managing Ontologies in Kepler |
| + ***** Support for versioning, accessing, classifying, etc. |
| + ***** Central versus Distributed storage |
| + **** Conventions for Kepler/SEEK ontologies |
| + ***** LSIDs for identifying ontologies |
| + ***** Labels (for concept and role names) and comments |
| + ***** Storing ontologies in multiple versus one file (what should go in a single file?) |
| + **** Ontology curation and population in Kepler |
| + ***** Allowing users to upload/provide new ontologies to Kepler |
| + ***** Supporting multiple ontologies for actor quick search |
| + **** Ontology editing w/in Kepler |
| + **** Making Ontologies convenient for Kepler users |
| + ***** Support for "views" and "templates", i.e., interfaces and methods for filtering, organizing, summarizing, and visualizing Ontologies |
| + **** Tools for SEEK ontology development |
| + ***** Glossary support |
| + ***** Documentation |
| + ***** Browsing, familiarization |
| + ***** Organization; "templates" and "views" (e.g., biodiversity templates, etc.) |
| + **** Improving the Annotation Tool |
| + ***** Filling in Annotations via ontology constraints |
| + ***** Defining what makes a "good" annotation, and how to guide users towards these |
| + ***** Improvements to the UI, including selecting ontologies and "templated" annotations |
| + *** Working exercise: building annotations |
| + **** Target case studies: ENM and Biodiversity |
| + **** Start as whole group, discuss actor/data annotation needs and differences |
| + **** Possibly break into subgroups to work on annotations |
| + |
| + ** Taxon Breakout [Taxon Breakout| AllHandsMeeting2005TaxonAgendaAndNotes] |
| + *** Update of EML to accomodate Taxon Concepts (Peet, Franz, Jones) |
| + *** Uber-discussion: 2006-2007 Vision, objectives, deliverables, roadmap, events |
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| - ** Semantic Mediation Breakout |
| - *** Semantics in Kepler |
| - **** Discovery |
| - **** Validation |
| - **** Integration |
| - ** Taxon Breakout |
| - *** Bob Peet leaves; Less critical items |
| + * 1:00 pm - 5:30 pm |
| + ** Semantic Mediation / Data Integration Breakout |
| + *** Overview of charge (Ludaescher, 15 minutes + 15 minutes discussion) |
| + *** SCIA integration in Kepler (Wang, 15 minute presentation + 30 minute discussion) |
| + *** Working exercise: data integration approaches |
| + **** Case study requirements for integration |
| + **** Simple "smart" concatenation |
| + **** Extending to more complex (and realistic) examples |
| + **** Adequacy of annotations and ontologies for integration |
| + *** Data Management support for sms |
| + **** The EML actor as entry point for data integration |
| + **** How do we deal with multiple output formats from EML? |
| + **** How do we deal with null values? |
| + **** How do we carry out integration specifications given by sms? |
| + ***** For example, using "R" to load instance data from multiple voluminous data sets (e.g., 3 100MB data files) and executing data integration "recipes" |
| + ***** A database-style approach? (e.g., SQL) |
| + *** What approach do we use for representing data conversions? |
| + **** Examples: unit conversions, count/area = density, rescaling/projection |
| + **** Represent conversions within ontology? |
| + **** Represent conversions as actors (searched via annotations, e.g.) |
| + **** Define a new or leverage an existing representation for conversions (Prolog, SWRL, XML syntax a la STMML, MoML attributes) |
| + **** Use potpourri approach (i.e., try to accomodate multiple mechanisms) |
| + |
| + ** Taxon Breakout [Taxon Breakout| AllHandsMeeting2005TaxonAgendaAndNotes] |
| + *** 1:00 PM Taxon meets SMS and KR 1 Hr. Bertram, Mark, et al. |
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| + |
