tags: Tuesday —

2026-10-06

Attending: Will, Andreas, Joel, Dom, Anna, Frances, Chris, Petr, Johannes, Khaled, Tiago, Seb, Kyle, Damien, Erin,

Start: 2:00 pm UK

Accepting minutes from last meeting

Project Status

(2-3 minutes each)

• Welcome to Anna Perotto. PhD student using LLMs for search etc of IDR

• IDR (Frances)
  • Ro-Crate file-size discrepency sorted
  • Preparing to go ahead with converting remaining time-lapse studies for submission to BIA
• OMERO (Seb)
  • OMERO.server 5.7.0
    • integrated omero-zarr-pixel-buffer with OME-Zarr 0.4 & 0.5 support
    • Next steps on the roadmap
      • Java requirements
      • Bio-Formats 9
      • Security hardening
      • DB changes
  • OMERO.web
    • no updates this week
  • OMERO.insight build status?
    • Seb: waiting for reviewers to retest latest changes. No release in the next week but hope to get PR merged soon.
• Bio-Formats (Seb)
  • Bio-Formats 9.0.0-rc2 released
    • include API for expressing orientation metadata, relevant for NGFF RFC-4
  • Roadmap/timeline of Bio-Formats 9 to be defined in October
• NGFF (Johannes)
  • Decision to move napari-ome-zarr-models-py stack to separate org to ease admin (see also https://forum.image.sc/t/a-new-home-for-the-ome-zarr-python-stack/122698)
  • ome-zarr-py 0.20.x released: Will be on conda-forge (since transformnd is now also there)
    • Some API improvements
    • Hardened tests
    • Open PRs to support writing different kinds of stores
  • napari-ome-zarr: PR to rebase on ome-zarr-py is merged, will go out with next release
  • ome-zarr-models-py: Draft PR by Kevin Yamauchi to clean up inheritance structure and ready the field for collections: https://github.com/ome-zarr-py/ome-zarr-models-py/pull/483
  • New comment on RFC8 by Benedikt Best: https://github.com/ome/ngff/pull/627
• GerBI
  • Johannes going on leave
  • Damien: ongoing work on extension mechanism proposal
  • Tiago: ESG 4 stars - new start “Bharti Arora”
• Glencoe
  • Fall meeting schedule:
    • Oxford Global Precision Medicine (October, Basel)
      • Erin and Emil
    • SBI2 (November, Boston)
      • Glencoe sponsorship and OME presentation (NGFF and OMERO)
      • Erin, Marc and Yajing
    • OME-Zarr Hackathon
      • Melissa and Seb
• BioVisionCenter (Joel)
  • New team member joined BVC: Davide Bottone, bioimage analyst - flow cytometry
  • Recording from last weeks OBPM
  • Upcoming OBPMs
  • OME-Zarr hackathon prep
  • New RFC-8 POC work on collection graph viewer & validation
• Community
  • 15th Oct: OMERO workshop in IOCB, Prague (Petr)
  • 2nd-6th Nov: NGFF hackathon, Zurich. Clash with Latin-American OMERO office hours - TBD

AOB

(5 min. max; tech. Discussion should be highlighted to relevant people and rescheduled)

Main Topic

(20-25 minutes plus 15 minutes questions max)