WBConfCall 2013.06.20-Agenda and Minutes

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Help Desk Issues

  • Unresolved help desk issues
    • #1091 OP50 sequence data deposition
      • Future: Don't think this will happen for WS239, but we do need to agree how to do this.
      • mh6: we surely can host the Excel file for WS239. I was also checking with the bacteria collection people if they want to add the SNPs to the parent strain on their site.
      • Should this be an agenda item for this meeting? @karen
    • #673 Upload Custom Tracks (.bed) The conversation seemed to have suggested someone would get back to Christian; however, I could not find a follow up message.
      • Pending:
    • #716 download fasta sequences of all C. elegans genes in operons I posted a response, but it did not address the issue that trying to download all the sequences of all genes in the operon at once results in a blank page. Would someone please check this out and get back to the user?
      • DONE: currently not possible to do this in bulk, but I will get back to the user and provide the data. @paul-davis
    • #942 User: CDS summary page feature request Has this been resolved for WS238? or should it be moved to another milestone? Can we consider this one 'helped' to remove it from the unhelped issues?
      • DONE: The original query was resolved the later additions are pending future schema modifications.....yes it can be moved to helped.
    • #1101 The gene name "sym-5" does not redi... Still waiting on the updated ortholog names filter... any updates on when this will come through?
      • DONE - WS239: fixed as it's a data issue.
    • #507 search for loci in a given region This particular message was first posted nine months ago, addressed for a while, then lost. In the meantime other people have been asking for the quick interval search option as well. While we do have interval search options available through the genetic map and GBrowse, I think the issue is the results page. In the old site, the page returned an easy to browse list of genes in table format with other summary information. Users would like this kind of tool again. http://legacy.wormbase.org/db/searches/interval Am I missing where this functionality exists on the new site? or can we get back to Michael Glotzer with an estimated time for developing such a tool?
      • Pending: I think the ticket covers what you are asking here, the tool wasn't ported and at present isn't planned although @acabunoc is assigned with a WS239 milestone so she might be able to comment??
    • #1375 Use of "login" when meaning "log in" User had corrected grammar and typos and requests we change login to log in when we are expecting users to do something. It was suggested that someone would be getting back to the user in specific response to this request. Would someone please get back to the user
      • DONE: @kyook, looking at the ticket I think you can respond to them as 2 of the 3 issues have been resolved by @gw3 (I don't have Dona********** (dhes**************) email address).
    • #1403 which UCSC wig formats gbrowse can take Would someone please respond to Kohta?
      • Pending: @tharris, do you know for the specific version of GBrowse we have??


  • Strategy for posters. There a 3 poster sessions, but our posters have all been scheduled for the first two (with a 2/4 split).
    • Presumably we still intend to display posters in our booth?
    • Proposal: we use the booth to display as many posters as we can that are not currently "on". Currently "on" posters are displayed in their proper/expected place.
  • A4 hand-out summarising WormBase events?
  • Sign up for table duty (see below)
  • Location and time of post-meeting meeting?

WormBase IWM event schedule

  • Thu Jun 27
    • 13:30 – 14:30 (1:30-2:30) WB Tutorial: Data Mining - Todd, JD - West Coast Meeting Room
    • 13:30 – 14:30 (1:30-2:30) WB Tutorial: Genomes, Comparative Genomics...Kevin - Bradley International Ballroom
    • 20:00 – 23:00 (8:00-11:00) WB Table - Pauley Pavilion
    • 21:30 – 23:00 (9:30-11:00) Odd "A" Posters (Mary Ann and Karen) - Pauley Pavilion
  • Fri Jun 28
    • 20:00 – 23:00 (8:00-11:00) WB Table - Pauley Pavilion
    • 20:00 – 21:30 (8:00-9:30) Even "B" Posters (Michael P. and Ranjana) - Pauley Pavilion
    • 21:30 – 23:00 (9:30-11:00) Odd "B" Posters (Xiaodong and James) - Pauley Pavilion
  • Sat Jun 29
    • 13:30 – 15:00 (1:30-3:00) WB Tutorial: Phenotypes, Interactions... Chris and Karen - Bradley International Ballroom
    • 13:30 – 15:00 (1:30-3:00) WB Tutorial: Data Mining - Todd, JD - West Coast meeting room
    • 15:00 – 18:30 (3:00-6:30) WB Table - Pauley Pavilion
  • Sun Jun 30
    • TBD (11-12?) Post-IWM WB meeting - TBA

Sign up for table duty

Thursday 20:00-21:30

Wen Chen, Daniela Raciti, Todd, Abby

Thursday 21:30-23:00

Wen Chen, Todd, Abby

Friday 20:00-21:30

Todd, Abby

Friday 21:30-23:00

Todd, Abby

Saturday 15:00-16:45

Todd, Kimberly, Abby

Saturday 16:45-18:30

Todd, Abby