Issues-9/10/2013
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Tuesday Sept 10th, 10:30am, 5th floor NE Boardroom
Contents
wb-dev -> dev.wormbase.org
Is anything not working?
Current issues
Joachim
GFF3
- emailed KH - GFF3 of c_elegans
- can't display all features in segmented features
- certain features - gbrowse needs label on lowest tier (heirarchy)
- new gff3 with proper names and backtrack on sources/types
- going through config files one by one - gff2/misconfigured tracks
Visualizations
Website:Visualization_Library_Assessment Website:Visualization_with_ggplot2_of_the_R-Project
- #885 -RNASeq expression feature request Hinxton Webteam UI-data display
- prototype?
- installed Ruby and R on new server - went really well
- new versions
- in principle set up, fill in api to show graphs
Current Issues
Under Testing - anything left to be done
- #1586 - Bug Report: the URLs in the Downloads widget of... HelpDesk Webteam UI-data display Under testing
WS239
- #909 - Standardize GBrowse configuration (when possible) gbrowse Webteam
- #910 -Test GFF3 and update species still using Bio::DB::GFF to Bio::DB::SeqFeature::Store administration gbrowse Webteam
- #1724 - Update FTP site with bioproject ids
- #1718 - Genelet tracks in gbrowse
- probably db connections
JD
Current Issues
- #741- lineage browser
- implementing LS suggestions
- #1647 - sequence summary addition
- change the label to just 'Pseudogene'?
- just about done
- #1082 - transposon family summary pages
- about done - just link to transposon page
- #1602 - sequence summary
- #1511 - remove links to non-curated species strains
Intermine
- recreated test suite - limited to mapping files
- reads mapping files, tests if records for each field, if it's filled in
WS239
- GFF3
- gbrowse
- website
- suggest to TH - keep it as it is, change for 240
- Cytoscape upgrade
- Karen & Chris requested legend changes