Latest revision as of 19:43, 5 December 2015

Agenda

There is a page for the SAB here
Accommodation: should non-Caltech folks arrange their own accommodation?
Flying dates: should all/most be present on Weds 3rd Feb for pre-SAB activities? Ideas:
- Project-wide planning meeting (practice talks etc)
- Smaller working groups to discuss specific topics (add your ideas below)
Agenda
- We should start thinking about one
- Do we know the complete list of advisors yet?
WS253 data upload: should we postpone the upload deadline until after SAB?
- Hinxton: yes

Tickets for review
- chromosome map tool (https://github.com/WormBase/website/issues/1103). Requires comment from web team
Next officer (from Monday 7th December) will be Daniela

Has anyone had a chance to look over the survey results?
If so, are there issues in the survey results that we should address for the SAB?

Curation, organisation, display and querying of RNASeq data (FlyBase have moved ahead of us here)
Database migration
Deconvolution of parasitic data (could discuss cross-referencing/linking between WB and WBPS for core species, cross-searching over the two resources, etc.)

Non-Caltech people should probably contact Sarah which will take care of arranging the accomodation for the SAB.

It would be a good idea to have a pre-SAB meeting on the 3rd, but Todd can only make the afternoon.
Most of Hinxton will be arriving late on the 2nd and leaving on the Sunday.
Discussing the Datomic migration appears to be a popular topic for the pre-SAB meeting.
Raymond: we should have a focus to the SAB meeting like collaborative efforts with other mods.

Raymond: we should have a focus to the SAB meeting like collaborative efforts with other mods.
Todd: we should think about how we can justify our funding.
Chris: we need to tailor our discussions with the SAB advisors to their fields of expertese.
Paul Sternberg mailed a list of advisors that included: Jason Stajich, Mike Cherry (probably) and Brian Oliver.

Postponing the upload until after the SAB is popular. People don't want to have to rush things with Xmas and the SAB taking up their time.

One outstanding query about the chromosome map tool. Sybil says that she will discuss things with the Intermine developer to get a list of gene positions to quickly draw the graphs.

Todd gave a quick summary of the response to the survey. The main point of concern appears to be the response to WormMine.
- Note [th]: only from the website perspective. Data curators should also look at results as it should help us prioritize curation. For example: how much effort we devote to non C. elegans species.
We should do more tutorials and outreach about WormMine.
There is a new user interface to Intermine coming in 2016.
Todd says that WormMart will be retired at the end of this month.
- Note [th]: as we had all discussed and agreed previously
People are not using WormMart heavily.
It was suggested that Parasite WormMart be added to the Tolls menu on the website, but Todd explained that the new WormMine will have a range or new features that will cover what people are currently using Parasite WormMart for
- Note [klh]: ParaSite BioMart is already linked to from the Tools menu on the web-site. That link should remain at least until WormMine is feature-complete.

Adam is making great progress in getting the Datomic database ready for driving the site.
ACeDB will certainly be used for at least the next year.
It makes sense to have curation use ACeDB for the time being.
Discussion of how model changes would work when using Datomic.
Raymond would prefer to see parallel running of the two systems for some time while problems are sorted out.
Todd: It is not worth people sitting down and learning Datomic yet.
Adam described his work on Docker to help set up a local copy of the database, including the website user inteface.
Chris: it would be great if this could be used by WormBase end users.

@@ Line 55: / Line 55: @@
 === WormBase Survey ===
 * Todd gave a quick summary of the response to the survey. The main point of concern appears to be the response to WormMine.
+** Note [th]: only from the website perspective. Data curators should also look at results as it should help us prioritize curation. For example: how much effort we devote to non C. elegans species.
 * We should do more tutorials and outreach about WormMine.
 * There is a new user interface to Intermine coming in 2016.
 * Todd says that WormMart will be retired at the end of this month.
+** Note [th]: as we had all discussed and agreed previously
 * People are not using WormMart heavily.
 * It was suggested that Parasite WormMart be added to the Tolls menu on the website, but Todd explained that the new WormMine will have a range or new features that will cover what people are currently using Parasite WormMart for