WebDev 2009.07.22-Agenda and Minutes
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Agenda
1. Administration Update (Todd; 5 minutes)
- Mercurial / DVCS overview
From last week's call, here is how to run a series of commands on a firewalled machine:
ssh gatewayhost.com "ssh firewalled_node.com 'cd /into/some/path; chown -R todd:todd *'"
2. Development update (Norie; 10 minutes)
- GBrowse2
- GFF2 to GFF3 converter
- Working on modularization, which features to export
- nBrowse2 update
- Bug and feature enhancements
3. GFF3 Validator (Todd, Zheng; 10 minutes)
- running okay at OICR
- http://modencode.oicr.on.ca/cgi-bin/validate_gff3_online
- Validator at modencode is exactly the same as Payan's but it is using updated ontology
- ZZ: provide patch or diff for old version *
4. modENCODE update (Marc, Peter, Zheng; 10 minutes)
Peter
- New data from Waterston group
- Developmental series and organ
- Formats: Wiggle and GFF3
- TH : what groups are provided SAM format?
- PR: So far only Waterston (and Celniker, but in fly)
Zheng:
- Submitted MacAlpine data to geo
Marc
- Away for the next two weeks
5. BioMart (Zheng)
- Talking with BioMart people (on vacations, at meetings)
- Assign a person for code development; automatic chado2schema mapping