Projects update meeting 2023-10-11

Attendees

• Members: David, Jim, Kimberly, Pascale, Seth, Suzi, Huaiyu, Paul, Chris, Cynthia
• Present:
• Regrets:

Announcements

• GOC meeting: October 17-19, 2023
  • Review and finalize agenda: Draft agenda
  • ISB is having a 1.5h session on the 18th

Administrative points

• Is this call moving to every other week or the second and fourth weeks of the month? In the past the Reactome2GO project-wide call was during this time slot on the no-GO calls weeks.

Feedback request

Proposal: need more information in GPI

Starting proposal to add to GPI: https://github.com/geneontology/project-management/issues/83

Meeting notes: https://docs.google.com/document/d/1GXSKLKWJMNZmUOBbuMhgvPf4WCjDaKLCooOcUF0UMoE/edit

• Noting some feedback from ZFIN curators: they can manually update obsolete gene ids in models (they did a trial run on noctua-dev), but noted that they will also need to be changing the model titles when those titles now refer to obsolete gene ids. We will need to think about also doing the latter when we get to the point when we're handling these updates computationally.

Recently closed projects

• GO API refactor
  • Needed for Adding pathways widget and GO-CAM landing to AmiGO pages
  • PO: Chris
  • One bug, has been moved to Software essential and proactive maintenance
  • Documentation still needs to be finalized

• Relations to link MF to BP in GO-CAMs and annotations
  • PO: Kimberly

Active projects

https://github.com/orgs/geneontology/projects/108/views/1

• Adding pathways widget and GO-CAM landing to AmiGO pages
  • PO: David and Kimberly
  • Little bit of work left once API refactor is done
  • the list of people who contribute to the project, and their role
    • David and Kimberly - POs, and requirements and testing
    • Patrick - coding
    • Seth - technical lead and coding
  • the list of tasks needed to finish the project
    • Finish work related to api refactor - see closed project above and new issue in Software essential and proactive maintenance
  • what is blocking? please list any technical issues and resources (personnel) issues?
    • See above
  • can you make a plan to do a sprint to complete the project?
    • See work moved to Software essential and proactive maintenance

• Yeast pathways
  • Completion was planned for mid-August
  • PO: Suzi
  • After 2023-09-28 Noctua update, work remaining will be SGD curation of errors in models

• SGD load
  • Completion was planned for mid-late August
  • PO: Suzi
  • Resources: Dustin (others?)

• GPAD/GPI specifications
  • PO: Suzi
  • Resources: Dustin (others?)

• Integrate MGI remainders
  • PO: David
  • Resources: Seth, Sierra, Lori, (Dustin)
    • Requires updated GPAD file for Lori to test (Oct 17)
    • Currently working on human ISO annotations, QCing Lori's file versus Sierra's file I found some bugs
    • Various team members have been traveling. David out Oct 10-13 at Reactome2GO meeting.

Upcoming projects

Noctua/GO-CAM working group (feedback on current curation system)

• • PO: Kimberly
  • I need feedback from GO managers and PIs on how to proceed with this project
  • Resources: ?
  • Start with 1-2 meetings of a subset of GO managers (David, Kimberly, Pascale, Seth, Suzi) to scope overall project and provide some structure for wider participation and future meetings

Projects updates

https://github.com/orgs/geneontology/projects/108