Difference between revisions of "WebDev 2009.07.22-Agenda and Minutes"
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Jump to navigationJump to search (New page: = Agenda = == 1. Administration Update (Todd; 5 minutes) == == 2. Development update (Norie; 10 minutes) == == 3. GFF3 Validator (Todd, Zheng; 10 minutes) == == 4. modENCODE update (Ma...) |
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== 1. Administration Update (Todd; 5 minutes) == | == 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) == | == 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) == | == 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) == | == 4. modENCODE update (Marc, Peter, Zheng; 10 minutes) == | ||
| − | == 5. Open Table == | + | 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 | ||
| + | |||
| + | == 6. Open Table == | ||
Latest revision as of 10:55, 22 July 2009
Contents
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
