Minutes

[Leonore Reiser]

>
Hi
Here are the minutes. Feel free to include anything I left out.
Leonore
> 1. Updates on ASPB & BOTANY 2004 (Leonore)

Approved for both. Main will be ASPB and an evening session. Leonore will
work with Sue Chambers from ASPB to organize evening users session for 2
hours.

Requested BOTANY 2004 shelve for 2005- no response yet. leonore will et
everyone know the outcome (and send a copy of the original request).

> 2.  Public live website: target release date, content (unified vocabulary
> vs all vocabularies, update frequency, FTP site content). Comments on site
> requested by Pankaj.

a.What is the content- how many ontologies to display- all or unified?

We want to show 1 ontology not all the components being used to develop.

b. Do we need to have a suggestion form for ontologies until we have a
unified vocabulary?

Remove the existing page for suggestions til later.

c. Leonore will make some images for the ontology page and explination of
how the ontologies are being merged.

d.When to target the release of the website?

January 6,2003.

e. Comments on the website.
Everyone review pages- links, browser compliance, report back the pages.
Format-
Browser and OS version...then specific comments.

f. Will a version of the onotology be included in the release?
Prelimiary version will not be included in the January version.
By end of December will have started the merge.
So conclusion is that we dont need to have the Amigo browser up for
January.

g.How often to update the public site?
start with quarterly update of the ontologies then monthly release
schedule. Start with quarterly and then see if we can
release on more frequent basis. Just the AMIGO version being updated.

h. Contents of FTP site.
Mirroring anon CVS everynight.
Should Shuly tar up individual vocabularies-NO, only have the PO
ontologies, database, create schemas etc. Do not mirror individual
ontologies.

> 3.Monsanto collaboration: Unified vocabularies and possible wording of an
> MTA associated with terms.  Dedicated personnel to contribute to the
> projectin the next year.

Doreen:
Outline of the conversation in previous email. THey want to give the
vocabularies. Want an MTA for paper trail. Integrate into unified
vocabulary but no PUBLIC release of their ontologies.

What is the definition of how to be a member of the consortium, rules of
membership (Charter), for all developers to integrate.

As long as restrictions do not apply to unified vocabulary. Main concern
no paper trail. Could someone  look at the source term and back fill a
Montasnto Ontology?
Not if the terms are NOT explicitly identified as contributed by them so
no one can trace back what they are doing.

They dont care about being able to identify their own terms within the
vocabulary. They dont want anyone else to be able to see their entire
organized vocabulary.

Who has signing authority of signing the MTA? Get final wording on MTA and
then sign off on it (Lincoln?).

If pioneer developers are POC collaborators they can have access to the
POC,and to Monsanto's vocabulary. AS collaborators, they are bound by the
MTA.

Developer members- applies to current member, discuss in monthly
conference call, accept application- CVS repositiry mailing list, monthly
minutes- expectation of contribution. Have to provide substatial and
meaningful contribution to the POC.

Should we have a POC interest groups page publicly available?

Monsanto:Will contribute one FTE next year for Soy anatomy and traits in
Gramene... Can use the same MTA for Gramene and POC - do not need a
separate agreement.

ACTION ITEM: Lincoln will write 'charter' for POC. what constitutes
membership - what roles and resposibilities for members in terms of
access, editing ontologies,behaviors etc...


4. DB issues/updates from Shuly/Doreen

a.Issue- getting Amigo to read ontology from POC website.
Amigo browser is reading from Gramene database now.Test version is up
(http://brie.cshl.org:8080/amigo/go.cgi).

Problem with the datasource- options list- is hard coded. Cannot take the
headers and footers for POC.

Lincoln:Modify the amigo software to take the URL /html and inserts it
into the header and footers which is the mod perl.

Comment out the associations links for now as we have no associations to
display.

Table development for the moment as Shuly will focus on other issues since
the first website release will not include the merged ontologies.

> 5.Updates for PAG 2004 if any.

a. should we open the developers session to potential collaborators?
Doreen suggests having others join in at the second session. Have
potential collaborators coming, Jag, Paulein coming to the meeting.

Decided that will open the last half hour of the evening session.

b.What is the agenda for this meeting?
Introductions, logistics for merging ontologies, timelines etc...

> 6.tutorial/introductory slideshow comments (or via email)

URL for powerpoint has been sent out. Make commments by the end of the
week and send them back to Pankaj/Leonore


7.Next meetings

a.In person, December (development meeting) and January (developers
meetign at PAG).
b. Conference calls.
January 2, prior to website release January 6, 2004.
Tentatively schedule others for first friday of the month in February and
March

>
> ANything else?
> Leonore
> -------------------------------------------------------------------------------
> Leonore Reiser, Ph.D.                   lreiser at acoma.stanford.edu
> The Arabidopsis Information Resource	FAX: (650) 325-6857
> Carnegie Institution of Washington	Tel: (650) 325-1521 ext. 311
> Department of Plant Biology		URL: http://arabidopsis.org/
> 260 Panama St.
> Stanford, CA 94305
> -------------------------------------------------------------------------------
>
>
>

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Leonore Reiser, Ph.D.                   lreiser at acoma.stanford.edu
The Arabidopsis Information Resource	FAX: (650) 325-6857
Carnegie Institution of Washington	Tel: (650) 325-1521 ext. 311
Department of Plant Biology		URL: http://arabidopsis.org/
260 Panama St.
Stanford, CA 94305
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