AmiGO 1 8

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Revision as of 17:47, 29 April 2010 by Sjcarbon (talk | contribs)
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Status

Currently experimental.

Done Features

  • Centralized testing (kappa)
  • GOOSE integrated into framework (GOOSE)

Current work

Frontend

  • Try and lighten up on some of the POSTs in AmiGO to make searches easier to track
  • Finish new term details page--find way to avoid confusion with old view
    • Try different icons
    • Try dynamic lines to highlight ancestors
    • Explore text-based views
  • Re-expose the buckets in slimmer
  • Update docs to most recent version (final item)

Backend

  • Work out CVS to SVN transition one way or another (this will be done by June first; give production plenty of heads-up during transition)
  • Setup production to produce their own indexes locally (don't want to shift db generation; will probably juggle frontend servers while producing indices (so much more benchmarking probably not needed))
  • See if association search index can be added/generated in a timely manner (talk to Tanya).

Bugs

      • Resolve Val's slimmer bug
      • Check and make sure that E. coli is done consistently (done first pass to 83333; need to check with Jim/upstream)

Experimental features (visible in live experimental)

  • Addition of ubiquitous completion in boxes
  • Matrix tool (nmatrix)
  • Integrate new RG views from Sven (likely deferred)
    • Check licensing of JS tree viewer
  • Relation filtering
    • Start with term enrichment and work out
  • Migrate peripheral pages to new framework
  • Migrate core pages over to the new framework
    • Front page with completion (concept)

Deferred features (stubs and plans)

  • Organizing annotation results by qualifier
  • Term request client for SF (AKA ART)
    • Could this be better done in wiki?
  • Cross-product and inter-ontology link support (may be punted until following release, but we will start on necessary infrastructure changes)

TBD (none of the above)

  • Coannotation (possible coannotation interface)
  • Advanced graph visualizations [1] [2]
    • Early plugin framework done
    • Heatmap and random plugin examples
  • Workspaces, generalization of sessions (concept)
  • Expand the scope of community annotation (depending on user feedback).
  • Switch TE caching over from page render caching to data caching (currently evaluating sqlite3)
  • RSS update on terms and gps (could be tied to GONUTs for timeliness?)
  • Looking at other ways to supply search results (perl clucene (apache) vs. lucene (tomcat) vs. solr (tomcat or jetty) vs. perl/xapian (apache) vs. ruby/ferret (apache))
    • Look at ways of solving "*ase" problem (if it is) (e.g. reverse indexing and merge results)