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All Hands Meeting 2005

Difference between version 89 and version 37:

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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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- ** EcoGrid Breakout
+ ** Synthesis Center demo at SDSC, 30 minutes (see [http://syncenter.org])
+
+ * 1:00 pm - 5:30pm
+ ** Breakout: Data supporting case studies (Pennington)
+ ** EcoGrid Breakout (Jones)
+ ** Overview of incomplete tasks (Jones)
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- ** Taxon Breakout
- *** 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)
- ** 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
- ** 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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+

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