Software Group Progress Report Q2 2014

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Progress Report Q2

Website

  • Drupal Content: migration complete (Moni, Seth, Rama, ...)
  • Drupal Rollout 106: migrated to amazon, still testing (Seth, Stuart)
  • AmiGO 2.0 released in March (Seth)
  • AmiGO 2.1 in testing May (Seth, Rama)

Authentication / Auth

  • Gathering GO-wide requirements
  • Persona
  • Authentication YAML specified

Noctua

  • CalTech hackathon
  • Documentation of 3 components: Noctua, Barista and Minerva
  • Implemented LEGO->GPAD in OWLTools

Transition to OWL

  • Added import catalogs to OE
  • oboeditor plugin for Protege v0.1 (Heiko, Simon J)
  • Fixes to obo/owl converter for never_in_taxon links

GPAD/GPI

  • GPAD 1.1 spec (Tony, Heiko, Chris, DavidOS)
  • Added 2-way converters to OWLTools (Heiko)
  • GPI exports direct from MGI (Mary)

This is important for future scalability but due to lack of resources we are delaying this until next quarter Transition to OWL Adding Berkeley OWL hackathon (with David and Tanya) Protege OBO metadata plugin v0.1 (Simon J and Heiko)

Integration of taxon constraints into editors file MySQL retirement awaiting developer assignment GAF<->GPAD<->LEGO converters Ported GAF<->GPAD to java framework (Heiko), testing required Initial LEGO->GPAD - many details TBD (Heiko) Migrate cron to Jenkins ongoing Support for groups /metrics report ontology, annotation, user (go_help), drupal, AmiGO2 todo Retire GO Mine ??

Priorities for Q3

WebSite

  • Drupal and AmiGO 2 client running in cloud?
  • AmiGO 2.3

Noctua

  • Working prototype of Capella-Noctua integration
  • SETH TO ADD

Infrastructure

  • Refactor Golr loading

MySQL retirement

  • Replace go-db-perl code with owltools code (Kalpana)

Transition to OWL

  • oboeditor plugin v0.2
  • prototype of solution for caching inferred links (Heiko, DavidOS)