Difference between revisions of "2010.05 OICR WebDev Meeting"

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* TH: setting up as subdomain, virtual host
 
* TH: setting up as subdomain, virtual host
  
== Update code ==
+
== Development Update Pipeline ==
  
* Norie: added support for mirroring databases from Sanger
+
* Norie: added support for mirroring pre-prepared GFF mysql databases fom Sanger
* '''Working on WS214'''
+
 
 +
'''TODO'''
 +
* Continue update to WS214
 +
* GFF MySQL code to be tested with WS215
  
 
== modENCODE ==
 
== modENCODE ==
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* Emailed dev list
 
* Emailed dev list
 
* Added caveat
 
* Added caveat
* '''Server need to copy over configuration files'''
+
 
 +
'''TODO'''
 +
* Need to copy over configuration stanzas to production configuration files
 +
** GBrowse-1.70
 +
** GBrowse-2.03
  
 
== GBrowse ==
 
== GBrowse ==
 
* Debugged various plugin issues
 
* Debugged various plugin issues
* '''add initial landmark config'''
+
* 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
  
 +
== Admin ==
 +
* TH: migrate wiki, forums, blog
 +
** added subdomains
 +
** update urchin tracking
 +
** updated proxy config
 +
** added 301 redirects
 +
** update index.html
 +
* TH: added analytics for subdomains
 +
* TH: Cleaned up calendar on Wiki; embedded google calendar; added events
 +
 +
'''TODO'''
 +
* TH: modify hostnames to reflect purpose
 +
* TH: backups/crises recovery plan
 +
* TH : wormbase infrastructre doc
 +
* migrate aceserver
 +
** wb-blast
 +
** perl 5.10.1
 +
** modules
 +
** acedb
 +
* TH: set up QA/QC testing schedule
 +
* Set up dev environment for new site
  
 
== Rearchitecture ==
 
== Rearchitecture ==
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* Expanded class coverage
 
* Expanded class coverage
 
* Norie working on additional classes
 
* Norie working on additional classes
* '''TH: need to prioritize classes'''
 
  
 +
'''TODO'''
 +
* TH: prioritize order in which classes/pages should be converted.
 +
** Gene (NdlC)
 +
** Protein (XQ)
 +
** Variation (TH)
 +
** Sequence (XQ)
 +
** Person (TH)
 +
** Paper (XQ)
 +
** Strain (NdlC)
  
 +
=== Environment===
  
 +
'''TODO'''
 +
* TH:to establish dev environment
  
===
 
 
QA/QC meetings
 
  
  
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* Issue Tracker issues
 
* Issue Tracker issues
 
* OICR aceserver
 
* OICR aceserver
 +
 +
 +
[[Category:Meetings]]

Latest revision as of 19:14, 10 August 2010

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

Admin

  • TH: migrate wiki, forums, blog
    • added subdomains
    • update urchin tracking
    • updated proxy config
    • added 301 redirects
    • update index.html
  • TH: added analytics for subdomains
  • TH: Cleaned up calendar on Wiki; embedded google calendar; added events

TODO

  • TH: modify hostnames to reflect purpose
  • TH: backups/crises recovery plan
  • TH : wormbase infrastructre doc
  • migrate aceserver
    • wb-blast
    • perl 5.10.1
    • modules
    • acedb
  • TH: set up QA/QC testing schedule
  • Set up dev environment for new site

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.
    • Gene (NdlC)
    • Protein (XQ)
    • Variation (TH)
    • Sequence (XQ)
    • Person (TH)
    • Paper (XQ)
    • Strain (NdlC)

Environment

TODO

  • TH:to establish dev environment



Visit goals

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