Tripal User's Meeting 2020/03/03

Meeting Date

Tue, 03/03/2020 - 12:00

Attendees

Jill Wegrzyn, TreeGenes

Chris Childers, Monica Poelchau, ARS-NAL

Stephen Ficklin, WSU

Ethy Cannon, USDA

Valentin Guignon, Bioversity CIAT Alliance (CGIAR)

Sean Buehler

Peter Richter, TreeGenes

Lacey Sanderson, USASK

Emily Grau, TreeGenes

Meg Staton, Noah Caldwell, Abdullah Almsaeed - UTK

Risharde Ramnath, TreeGenes

Community Highlights

Please add anything you would like to highlight about your Tripal-based projects: publications, new extension modules, new collaborations, newly funded grants, project update, etc. We won't talk about these in the meetings but may tweet them from the Tripal twitter account if you approve!

Name	Highlight Description	Can we tweet it? Yes/No
Jill/TreeGenes	Irene Cobo just joined us from Spain as Postdoc to develop CartograTree in collaboration with HWG	Yes
Jill/Oregon Biodiversity Genome Project	We (Peter) have setup a base installation of Tripal for these folks to migrate their system to: https://www.obgp.org/	Next Month, Yes ;)
Jill/TreeGenes	Funding received (starting soon) from NSF to develop a deep learning genome annotation workflow that will operate independently and as a Tripal module. Will be deployed first at TreeGenes	Yes
Jill/Meg	Tripal will serve as the framework for data associated with the timber tracking objectives - World Forest ID	Will tag Tripal to retweet
Jill/Mimubase	This is not fully new but Mimubase should be added to sites using Tripal! http://mimubase.org/ (developed by Peter)	Yes!
Valentin	MSAViewer in a module for Drupal 7 (Tripal not required) https://www.drupal.org/project/msaviewer	yes

Agenda

Messages from the PMC (Lacey Sanderson, Bradford Condon, Stephen Ficklin)
- Tripal 4 development update (https://github.com/tripal/t4d8)
- Community engagement for Tripal 4 Development:
  - Docker available for quick start-up
  - Documentation available for Drupal 8 from a Tripal perspective: https://tripal4.readthedocs.io/en/latest/dev_guide.html
  - Issues describing a current set of manageable tasks to help you jump in: https://github.com/tripal/t4d8/issues
Messages from the TAC Chair (Meg Staton)
- At PAG meeting had discussion about how to expand
- White paper and movement on grants.
- Next month is the advisory committee meeting we may need to move a week or two later as Meg may be out of town.
  - Talk about grants and white paper
    1. Ethy and Monica had indicated support to lead the white paper discussion/work.
  - Everyone is invited! Even if not a TAC member.
Demo of Tripal HQ by Sean Buehler
- https://github.com/statonlab/tripal_hq
Brief update on gene pages (Monica Poelchau)
- see https://github.com/tripal/tripal/issues/100, https://github.com/tripal/tripal/issues/732
- i5k and HWG are picking up the gene page issue again. I suspect that we will tackle individual components in stages, and will seek feedback for each one
- will start with Jbrowse field for feature pages
- will abandon the idea of populating gene page with 'grandchild' info
- what considerations should we have in developing this for Drupal 8/Tripal 4
  - Lacey:
    1. currently tripal fields are being ported now to D8 so once that is done we should have a better idea of what considerations there might be.
    2. we're working to make sure that upgrading is as easy as possible and there will be as few requirements to update a field as possible.
AgBioData meeting tomorrow to discuss GFF3 format. See if there are enough use cases to identify the main issues in the format to see if we can get the AgBioData community to rally around a way to represent structural and functional data across databases.

Meeting Type

Users