| Line 20 was replaced by line 20 |
| - *** Taxon (Kennedy (TCS), Peet (ConceptMapper), Stewart (TOS)) |
| + *** Taxon (Kennedy) |
| Lines 33-34 were replaced by lines 33-34 |
| - * 10:45 - 11:15 Synthesis Center demo at SDSC |
| - * 11:15 to 12:00 Data Integration as 2006 goal |
| + |
| + * 10:45 - 12:00 Data Integration as 2006 goal |
| At line 39 added 3 lines. |
| + ** Synthesis Center demo at SDSC, 30 minutes (see [http://syncenter.org]) |
| + |
| + * 1:00 pm - 5:30pm |
| Lines 48-50 were replaced by lines 51-54 |
| - ** Taxon Breakout (Beach) |
| - *** Concept data discussion with NESCENT and CIPRES reps |
| - *** Any remaining sub-project updates |
| + ** 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 |
| Line 52 was replaced by lines 56-57 |
| - * 7:00pm __Group Dinner__, Location TBD |
| + |
| + * 7:00pm __Group Dinner__, Location: Rock Bottom |
| Lines 56-58 were replaced by lines 61-67 |
| - ** [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 |
| At line 60 added 2 lines. |
| + ** SEEK-Taxon/CIPRES Project Lunch, Franz, Stewart, Gales with Miller, Jin, Lucie): Common ground |
| + * 1:00 pm - 5:30 pm |
| Removed lines 62-64 |
| - ** Taxon Breakout |
| - *** Extracting concepts from online sources (Susan, Aravind) |
| - *** Usability thread: bat project (Laura) |
| At line 65 added 6 lines. |
| + ** [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 |
| + |
| At line 67 added 1 line. |
| + * 8:30 am - 12:00 pm |
| At line 72 added 23 lines. |
| + *** 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 |
| Line 78 was replaced by line 116 |
| - ** Taxon Breakout |
| + ** Taxon Breakout [Taxon Breakout| AllHandsMeeting2005TaxonAgendaAndNotes] |
| Lines 80-81 were replaced by line 118 |
| - *** May 2006 Taxon-oriented SEEK workshop, NM (with Deana) |
| - *** Future Plans: events, objectives, deliverables |
| + *** Uber-discussion: 2006-2007 Vision, objectives, deliverables, roadmap, events |
| At line 83 added 1 line. |
| + * 1:00 pm - 5:30 pm |
| Lines 87-94 were replaced by lines 125-142 |
| - * 10:30 - 10:45 __Break__ |
| - ** 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 |
| - *** Scalability of 'knowledge reasoning' approaches to data integration (e.g., incorporating instance data) |
| - **** Discuss possibility of the reasoner (e.g., Jena) developing an 'integration plan' that is implemented in another system (e.g., R) to avoid having to load instance data from multiple voluminous data sets (e.g., 3 100MB data files) into the reasoner itself (e.g., Jena) |
| + *** 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) |
| Lines 96-97 were replaced by lines 144-145 |
| - ** Taxon Breakout |
| - *** Bob Peet leaves; Less critical items |
| + ** Taxon Breakout [Taxon Breakout| AllHandsMeeting2005TaxonAgendaAndNotes] |
| + *** 1:00 PM Taxon meets SMS and KR 1 Hr. Bertram, Mark, et al. |
