WormBase-Caltech Weekly Calls
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2011 Meetings
September 1, 2011
SPELL
- Raymond and Wen worked on putting on Amazon cloud
- SPELL running on Amazon cloud
- What next?
- Need to be careful about running a cloud instance
- Elastic IP? No, not yet
- What are the requirements for SPELL? Free instance is currently sufficient
- Need more memory for the start-up process
- Haven't yet figured out a way to do stress tests
- SPELL does not have many users (~500 queries per month)
- Free tier available for only 6 months and then gone
- Need to determine what the build requirements are (needed for every build/release)
- Only want one copy of it (so we aren't paying twice)
- Single canonical AMI
- First step, firgure out build requirements (need more memory during build?) and runtime requirements
- Free instance 2GB memory (upgraded) for build, 600MB memory OK for runtime
- What will it take to maintain one of these instances for a year?
- Double up SPELL queries with the main WormBase instance on the cloud to consolidate?
- How to more fully incorporate SPELL into WormBase?
- Integrate SPELL into the new WormBase App? (branding, tracking access)
- Running under Apache; Ruby-on-Rails
- Could maintain cloud instance for now and see how it will function (and what it will cost) over the year
- Better if elastic IP assigned (25 cents/day? Or free once attached to an instance?)
- Can it run in a micro-instance? Yes
- $175/year for cpu plus disk space and transfer
- Switch credit cards (from Raymond's to Caltech)
- Follow logs to assess likely costs later on
September 8, 2011
NAR Paper
- Ranjana having Editing trouble
- Karen will format tomorrow for the bibliography and so will be off Google Docs
- Paper due at end of October
- There is discussion of submitting other papers to other journals; Worm?
- Want consistent presence in Worm? Ad space?
- Journals: NAR, BMC (Bioinformatics etc.), Worm, Database
- What content would be appropriate for each journal? Who is the target audience?
- Ongoing short editorial (or something) in each issue of Worm? "Hints from WormBase"?
Caltech Internet/Network issues yesterday
Aldrin Montana
- Difficulty installing AMIGO on computers
- Busy with it until had to go back to school
RNAi Curation Standard Operating Procedure (SOP)
- Written on WormBase Wiki under Caltech Documentation > RNAi
SVM transition
- From Ruihua to Yuling
- Ruihua will meet with Yuling next week to discuss
- There likely will be issues during the transition
- Should alert Hinxton/EBI and Wash U
