Difference between revisions of "WebDev 2011.12.07-Agenda and Minutes"
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== 2. Update from Lincoln! (10 minutes) == | == 2. Update from Lincoln! (10 minutes) == | ||
+ | * Nothing to discuss | ||
+ | * Change to VMs - feedback from TH | ||
+ | ** Storage upgrade this weekend (TH) | ||
+ | *** VMs seem stable - old vms had high cpu load doing nothing | ||
+ | *** improved (some transient problems) | ||
+ | *** changes made to several servers | ||
+ | *** plans to move to debian 6 (upgrade from debian 5) | ||
== 3. App/UI development update (Abby; 10 minutes) == | == 3. App/UI development update (Abby; 10 minutes) == | ||
+ | * Protein Call Summary - see action items email from Chris | ||
+ | * Xapian update | ||
+ | ** index common names for go_term, anatomy_term | ||
== 4. GBrowse and UI development update (Xiaoqi; 10 minutes) == | == 4. GBrowse and UI development update (Xiaoqi; 10 minutes) == | ||
+ | * WormBase ontology browser (xshi.wormbase.org/tools/ontology_browser) | ||
+ | ** added descriptions | ||
+ | ** TH - paged results: have tabbed file download | ||
+ | ** number of associations per term - useful? | ||
+ | *** will need to retain flat files to display | ||
+ | *** TH: not worth effort now | ||
+ | * Adding 2 new species to WS229 | ||
+ | ** add gbrowse config for these | ||
+ | * Protein call - schematic image not working | ||
+ | ** Catalyst::View::GD module out of date | ||
+ | ** will look into this more | ||
+ | * Will look into interaction and orthology flat files | ||
== 5. AceCouch development (Adrian; 10 minutes) == | == 5. AceCouch development (Adrian; 10 minutes) == | ||
+ | * Couch is behaving very well now (magic?) | ||
+ | ** moving on to database compaction (save 10G) | ||
+ | ** API - works mostly, some problems moving through the tree (right, at, etc..) | ||
+ | *** no inherent ordering in AceCouch because of how data loaded | ||
+ | *** LS - right often used where col would work. Try replacing. Same with at. | ||
+ | *** can either restructure data going into couch or emulate right | ||
+ | **** try emulation | ||
== 6. Crisis Management Plan (Todd; 10 minutes) == | == 6. Crisis Management Plan (Todd; 10 minutes) == | ||
* http://wiki.wormbase.org/index.php/Crises_Recovery_Plan | * http://wiki.wormbase.org/index.php/Crises_Recovery_Plan | ||
+ | * LS: should be moved to google doc or something independent of structure | ||
+ | ** on WormBase.org doc | ||
+ | * companion doc: structure | ||
+ | * giving access to cloud resources | ||
+ | * discussion on what our policy is when things happen - rotate? shifts? | ||
== 7. Open Table == | == 7. Open Table == | ||
+ | * LS: Version 1.44 of gbrowse - performance improvement, bug fixes | ||
+ | ** not out on cpan yet - git version | ||
+ | ** prefork optimum performance with gbrowse |
Latest revision as of 21:47, 7 December 2011
Contents
- 1 Agenda
- 1.1 1. Administrative Update (Todd, 5 minutes)
- 1.2 2. Update from Lincoln! (10 minutes)
- 1.3 3. App/UI development update (Abby; 10 minutes)
- 1.4 4. GBrowse and UI development update (Xiaoqi; 10 minutes)
- 1.5 5. AceCouch development (Adrian; 10 minutes)
- 1.6 6. Crisis Management Plan (Todd; 10 minutes)
- 1.7 7. Open Table
Agenda
1. Administrative Update (Todd, 5 minutes)
- 228 still not out
- delayed by a week - problems at oicr
- staging 229 now
- few more steps - done in next few hours
- compiling flat files - watching out for id -> association counts
- AC will push new Xapian index script
- progress with systems
2. Update from Lincoln! (10 minutes)
- Nothing to discuss
- Change to VMs - feedback from TH
- Storage upgrade this weekend (TH)
- VMs seem stable - old vms had high cpu load doing nothing
- improved (some transient problems)
- changes made to several servers
- plans to move to debian 6 (upgrade from debian 5)
- Storage upgrade this weekend (TH)
3. App/UI development update (Abby; 10 minutes)
- Protein Call Summary - see action items email from Chris
- Xapian update
- index common names for go_term, anatomy_term
4. GBrowse and UI development update (Xiaoqi; 10 minutes)
- WormBase ontology browser (xshi.wormbase.org/tools/ontology_browser)
- added descriptions
- TH - paged results: have tabbed file download
- number of associations per term - useful?
- will need to retain flat files to display
- TH: not worth effort now
- Adding 2 new species to WS229
- add gbrowse config for these
- Protein call - schematic image not working
- Catalyst::View::GD module out of date
- will look into this more
- Will look into interaction and orthology flat files
5. AceCouch development (Adrian; 10 minutes)
- Couch is behaving very well now (magic?)
- moving on to database compaction (save 10G)
- API - works mostly, some problems moving through the tree (right, at, etc..)
- no inherent ordering in AceCouch because of how data loaded
- LS - right often used where col would work. Try replacing. Same with at.
- can either restructure data going into couch or emulate right
- try emulation
6. Crisis Management Plan (Todd; 10 minutes)
- http://wiki.wormbase.org/index.php/Crises_Recovery_Plan
- LS: should be moved to google doc or something independent of structure
- on WormBase.org doc
- companion doc: structure
- giving access to cloud resources
- discussion on what our policy is when things happen - rotate? shifts?
7. Open Table
- LS: Version 1.44 of gbrowse - performance improvement, bug fixes
- not out on cpan yet - git version
- prefork optimum performance with gbrowse