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| [[WormBase-Caltech_Weekly_Calls_March_2013|March]] | | [[WormBase-Caltech_Weekly_Calls_March_2013|March]] |
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− | | + | [[WormBase-Caltech_Weekly_Calls_April_2013|April]] |
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− | = April 4, 2013 =
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− | IWM 2013
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− | *Abstracts for posters (6 posters total)
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− | *WormBase booth with desks and poster space
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− | **How is the space going to be configured?
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− | **Will there be enough space?
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− | *Projector? Need space to project
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− | *Standing tables instead of desks
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− | IWM Promotional ideas
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− | *Recycle ideas/items
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− | *See what we have in stock
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− | *Temporary tattoos?
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− | *SPlit cost with GSA?
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− | *Mugs?
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− | *Triangular worm pick/pencil grip
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− | Expression pattern, personal communication
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− | *Can we include expression patterns from WormBook?
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− | **Original report from paper by Chris Li et al
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− | **Conflicting neuropeptide expression pattern from Oliver Hobert & Cori Bargmann in WormBook
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− | *How do we handle? Can we put description in WormBase?
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− | *Normally we don't curate from reviews
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− | *Best to contact Chris Li, check with her about expression pattern
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− | *Amend/Edit expression pattern as appropriate
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− | Function, Human Disease poster
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− | *"Gene Function & Dysfunction"
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− | *Concise description
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− | *GO terms
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− | *Phenotypes (RNAi- and variation-based)
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− | *Anatomy: Site of Action and Anatomy Function
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− | Variation list
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− | *Handling large number of variations in OA
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− | *Generating list of variations likely to be attributed with phenotypes
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− | *Table maker vs Scripts?
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− | *Variation data from GeneAce, how frequently updated? Real time?
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− | *Get new variations from Variation Name Server, not GeneAce
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− | *Is it worth trying to get daily updates?
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− | *Name Server: get Variation & Gene info from
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− | *Propose adding the Variation-Gene connections to Name Server
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− | *Can we (Caltech) mirror/copy GeneAce locally? Fire wall issues
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− | *Store MySQL databases on the cloud? Bypass fire walls? Maybe for long term plan
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− | = April 11, 2013 =
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− | IWM abstracts
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− | *Deadline tomorrow
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− | *Topics to place posters under? Database, biological topics?
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− | *Registration
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− | **What's the status?
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− | **Karen made a Google doc, but asked us to hold off on filling out info until she talks to Mary Alvarez
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− | Upload coming up
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− | *Wen preparing mid-build
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− | *Wen pushing Citace Minus fixes
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− | Dead gene handling
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− | *Historical_gene tag has been added to appropriate models
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− | *Chris will work with Juancarlos to sort out OA dumping scripts for Gene_regulation and Interaction OAs
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− | *Chris will work with web team to sort out web display issues
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− | *Chris will write up a template describing all the changes that need to be made
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− | Computers
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− | *Raymond setup FTP directory for Wen
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− | *If anyone wants an FTP folder, we can do that
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− | *Would exist on caltech.wormbase.org on Canopus
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− | *Spica: WS237 was having problems
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− | **Couple of issues with Spica: older hardware, using older operating system (Red Hat)
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− | **ACEDB software problem
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− | ***Possible but difficult to upgrade ACEDB software
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− | ***Not yet resolved issue with XACE or AcePerl, but AceDiff is resolved
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− | **WS237 had a data problem
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− | ***Raymond re-installed WS database
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− | *Mac issues: key mapping (e.g. Alt+F4)
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− | **Solution? Use virtual machine?
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− | **VMWare has Fusion; apparently works fairly well
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− | **Mac users could install, for example, Ubuntu with Fusion and run ACEDB on Ubuntu
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− | **Raymond is confident in providing support for this approach
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− | *Running ACEDB remotely is possible, but probably not a long-term, robust, or sustainable solution
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− | *Note: ACEDB needs to be built from source; binary images don't work
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− | = April 25, 2013 =
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− | IWM Meeting
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− | *Posters and talk(s)
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− | *We may not be able to get booth space to accommodate all (6) posters AND a projection screen
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− | *Todd and Chris will discuss with Anne Marie Mahoney
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− | Upload Schedule
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− | *Need better upload/release schedule
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− | *Add more events: Citace testing?
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− | *Strict vs flexible timeline?
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− | *Proposed timeline on [http://timeglider.com/ Time Glider] app: [http://timeglider.com/timeline/cacc0f6f4491a510 Karen's proposal]
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− | WormBase You Tube Channel
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− | *Abby and Todd looking into this now
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− | *Macs running OSX Lion or higher have a good screen capture functionality with Quicktime (for free)
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− | *We can prepare videos with content for the upcoming workshops
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− | Capturing curation pipeline documentation on [https://github.com/WormBase/wormbase-curation GitHub WormBase curation repository]
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− | *Store scripts for OA dumping scripts, for example
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− | *Can keep links to relevant Wiki pages
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− | *Curators should be the ultimate manager of scripts, working with Juancarlos to make any required changes
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− | *Karen will work out a procedure for "Gitifying" her curation pipelines and will share what worked with other curators
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