2010.05 OICR WebDev Meeting

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Meeting summary

BioMart

  • Abby: built WS205, migrated to new biomart machine

TODO

  • Abby: might be some configuration problems with Apache
  • TH: setting up as subdomain, virtual host

Development Update Pipeline

  • Norie: added support for mirroring pre-prepared GFF mysql databases fom Sanger

TODO

  • Continue update to WS214
  • GFF MySQL code to be tested with WS215

modENCODE

  • Xiaoqi: migrated current modENCODE data to production
  • Emailed dev list
  • Added caveat

TODO

  • Need to copy over configuration stanzas to production configuration files
    • GBrowse-1.70
    • GBrowse-2.03

GBrowse

  • Debugged various plugin issues
  • SequenceDumper.pm and FastaDumper.pm issues

TODO

  • add initial landmark config
  • set up GBrowse 1.x @ OICR and update proxy
  • XQ: Ensure feature parity between GB1/GB2
  • Resolve preservation of track selection prefs problem
  • TH: Karyotype hosting?
  • resolve keyword searching issue (ie unc-9)
  • Sanger: nucleosome data

Rearchitecture

Database Connectivity

  • Xiaoqi: converting from lock based method to one checking status
  • Xiaoqi: code done next week or so.

API

  • Standardized data structure
  • Expanded class coverage
  • Norie working on additional classes

TODO

  • TH: prioritize order in which classes/pages should be converted.

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QA/QC meetings


Visit goals

  • Benchmarks
  • Tests
  • Documentation
  • Sanger Databases
  • Issue Tracker issues
  • OICR aceserver