Re: [Gmod-tripal] Tripal steering committee meeting

SourceForge Headquarters 225 Broadway Suite 1600 San Diego, CA 92101 +1 (858) 454-5900

Hello,
Just another quick reminder that about our dev call tomorrow (*October 1st,
8am PT, 11am ET, 3pm GT)*. Zoom information below. We will start with
discussions for the Tripal Advisory Committee (I got our name wrong in the
last email! Oops!). Our agenda items are:

- PAG - who will be doing what and what we want out of the official session
and codefest
- Ongoing grants

No other issues are tagged on the queue for us or have come to my
attention, but it's not too late! Send them along :)

If I don't hear from anyone, I also propose we talk about a Tripal File
module. Stephen spec'ed this out in 2017, and in collaboration with i5k and
TreeGenes, we are now looking at developing it. The lead developer, Sean
Buehler, will be able to walk us through our current ideas and solicit any
additional community input before we solidify the plan. I am pasting a few
brief details about it below as well as the zoom link for tomorrow's
meeting.

Talk to you soon!
Meg Staton

*File Module:*
Original scope:

   - To automatically create download links on data pages.
   - To provide access to files via web services.
      - For file access (where are the files and downloading them)
      - Random access to the file.
   - To allow for data retrieval from indexed files for data that is not
   conducive for storage in Chado (e.g. genomic alignments in BAM files).
   - Provide access control for files.

New ideas:

   - To be implemented as a "File" field to be associated with any given
   bundle type
   - Manage both local and remote files (HTTP or FTP)
   - Enable (or provide) file housekeeping
      - Periodically check that all listed files are available/correct
      (md5?)
      - Some kind of version control
   - Interface with the loaders - when a file is loaded, also gets stored
   as a flat file
   - Enforce standards
      - file organization structure (IE folders) and/or standard file names
      - file format checking (lightweight)
      - DOI and licensing for files

*ZOOM*
Join from PC, Mac, Linux, iOS or Android:
https://tennessee.zoom.us/j/663010000

Or iPhone one-tap (US Toll): +16468769923,663010000# or
+16699006833,663010000#

Or Telephone:
    Dial:
    +1 646 876 9923 (US Toll)
    +1 669 900 6833 (US Toll)
    400 669 9381 (CN Toll Free)
    Meeting ID: 663 010 000
    International numbers available: https://zoom.us/u/awrCSyi1O

Or an H.323/SIP room system:
    H.323: 162.255.37.11 (US West) or 162.255.36.11 (US East)
    Meeting ID: 663 010 000

    SIP: 663...@zo...

On Tue, Sep 24, 2019 at 3:36 PM Meg Staton <me...@gm...> wrote:

> Our next dev meeting is* October 1st, 8am PT, 11am ET, 3pm GT. *This
> meeting will be for the Tripal Steering Committee to discuss community
> issues. If you have agenda items for the steering committee, please let me
> know or tag us on a GitHub issue. If we don't have many items in the next
> few days, I will open the agenda up to other dev issues/demos, so stay
> tuned.
>
> Zoom link below.
>
> Talk to you soon!
> Meg
>
> Join from PC, Mac, Linux, iOS or Android:
> https://tennessee.zoom.us/j/663010000
>
> Or iPhone one-tap (US Toll): +16468769923,663010000# or
> +16699006833,663010000#
>
> Or Telephone:
>     Dial:
>     +1 646 876 9923 (US Toll)
>     +1 669 900 6833 (US Toll)
>     400 669 9381 (CN Toll Free)
>     Meeting ID: 663 010 000
>     International numbers available: https://zoom.us/u/awrCSyi1O
>
> Or an H.323/SIP room system:
>     H.323: 162.255.37.11 (US West) or 162.255.36.11 (US East)
>     Meeting ID: 663 010 000
>
>     SIP: 663...@zo...
>
>
> On Mon, Sep 23, 2019 at 8:00 AM Manuel Ruiz <man...@ci...> wrote:
>
>> Hi all,
>>
>> sorry to answer so late,
>> the first week of October, I would be travelling to Vietnam so there is
>> little chance that I will be able to attend the meeting.
>> In return, I will present the Rice Genome Hub (tribal based) to
>> Vietnamese partners :-)
>>
>> Best
>>
>> Manuel
>>
>> Le 15/08/2019 à 18:46, Meg Staton a écrit :
>>
>> Hi,
>> It's been quite some time since our last meeting, and we've got lots to
>> discuss. A few items for you to consider...
>>
>> 1. Next meeting
>>
>> Our next official meeting is* October 1st, 8am PT, 11am ET, 3pm GT. *However,
>> we may want to have a meeting sooner, specifically to discuss the below
>> items. I've created a doodle poll for our normal Tuesday time slot for the
>> next month. For the September 3rd option, it is an hour after the regularly
>> scheduled dev meeting on that date. *(*
>> https://doodle.com/poll/u6pnrirsvkkpkxqf). We could consider this an
>> optional meeting for those who are interested in discussing things such as
>> grants, respond if you want to attend.
>>
>> 2. PAG Tripal organizer
>>
>> The project management committee (Stephen, Lacey and Bradford) have
>> suggested we have two organizers for PAG this year, one from their group
>> and one from ours. They have nominated Lacey. Any volunteers from our
>> group? This includes organizing the official Tripal session at PAG and the
>> codefest. The main perk is support for travel to PAG, with the two
>> organizers able to split the following benefits: a waiver for the
>> conference registration, $400 toward a flight, 4 free nights conference
>> hotel stay.
>>
>> 3. Grant planning
>>
>> Some of us had Tripal grants in the works that stalled out over the
>> summer. (Me, for example!). It might be worth revisiting our general ideas
>> and plans if any are ongoing or report what was already proposed if
>> something has been submitted. One reason I see for this discussion is that
>> Shawna Spoor left Stephen's lab earlier this year, and thus there is no
>> foreseeable path forward for Tripal 4 development without some type of
>> support. With the demise of Drupal 7 coming fast, this is a concern for the
>> entire community and one we should work together to solve and fund.
>>
>> 4. Github issues - TAC discussion label
>>
>> For those of you active on the Tripal issue queue, I added a label for
>> "TAC discussion" so we as a group can be called to consider an issue. I
>> went ahead and added us to an issue about changing the monthly user call
>> format as an example:
>> https://github.com/tripal/tripal/issues/984
>>
>>
>>
>> Please send me any feedback and consider responding to the doodle poll if
>> you want to talk about PAG and/or grants.
>>
>> Thanks for your time,
>> Meg
>>
>> --
>> Margaret Staton
>> Assistant Professor
>> Department of Entomology and Plant Pathology
>> Office: 154 PBB
>> Mail: 370 PBB, 2505 EJ Chapman Drive
>> Knoxville, TN 37996-4560
>> she/her/hers
>>
>> 864-506-4515 Mobile
>> mst...@ut...
>>
>>
>>
>>
>>
>> --
>> Manuel Ruiz
>>
>> CIRAD
>> UMR Amélioration Génétique et Adaptation des Plantes méditerranéennes et tropicales
>> Equipe "Intégration des données"
>>
>> TA A-108/03
>> Avenue Agropolis
>> 34398 Montpellier Cedex 5
>> France
>>
>> e-mail : man...@ci...http://agents.cirad.fr/index.php/manuel+ruiz/manuel_ruiz_en
>>
>>
>
> --
> Margaret Staton
> Assistant Professor
> Department of Entomology and Plant Pathology
> Office: 154 PBB
> Mail: 370 PBB, 2505 EJ Chapman Drive
> Knoxville, TN 37996-4560
> she/her/hers
>
> 864-506-4515 Mobile
> mst...@ut...
>
>
>
>
> --
> Margaret Staton
> Assistant Professor
> Department of Entomology and Plant Pathology
> Office: 154 PBB
> Mail: 370 PBB, 2505 EJ Chapman Drive
> Knoxville, TN 37996-4560
> she/her/hers
>
> 864-506-4515 Mobile
> mst...@ut...
>
>
>
>
>

-- 
Margaret Staton
Assistant Professor
Department of Entomology and Plant Pathology
Office: 154 PBB
Mail: 370 PBB, 2505 EJ Chapman Drive
Knoxville, TN 37996-4560
she/her/hers

864-506-4515 Mobile
mst...@ut...