tags: Tuesday —

2026-05-19

Attending: Will, Chris, Dom, Josh, Andreas, Petr, Joel, Damien, Melissa, Johannes, Frances, Tom, Seb, Kevin, Tiago, Kyle,

Start: 2:00 pm UK

Accepting minutes from last meeting

Project Status

(2-3 minutes each)

• IDR (Frances)
  • Planned IDR downtime last week
  • Dom testing playbooks for UoD deploy
  • Will: omero-web zarr display #613 and iviewer redirect #529 PRs needed for IDR
• OMERO
  • Next releases (Seb)
    • OMERO.server 5.6.18: see version history
    • OMERO.web 5.31.1
    • Announcements this week
  • Zarr v3 support: omero-zarr-pixel-buffer.
    • url encoding ftw! DB upgrade or try encoded/unencoded?
    • Chris: Paths that are valid on the filesystem != those that are valid on S3.
• Bio-Formats (Melissa)
  • 9.0.0 milestone review
  • Next formats meeting NGFF - Zarr Java (with Norman)
    • 2pm Monday (UK time)
• NGFF
  • 0.6 Status (Johannes)
    • implementing new spec. ome-zarr-models-py etc
    • Josh: a GUI implementation would be nice!
  • Lossy compression, esp. NDPI (Chris)
    • “jpeg is hard”
    • from the hackathon
  • image.coop: assessment of needs (Josh)
  • zarr_vectors (FYI)
  • ome-zarr.js ColorMaps https://github.com/jwindhager/ome-zarr.js/pull/1 (Will) - FYI from the hackathon
• GerBI (Josh)
  • ImagingPHD project is battling typed-vs-untyped language issues (Damien)
  • FoundingGIDE project is wrapping up: https://www.gide-project.org/portal and a RO-Crate profile (Josh/Tiago)
    • Next steps incl. Biohub project & EU proposal: find OME-Zarr behind search results
  • Working on compatibility between ome-zarr and croissant ML metadata format (Tiago)
• Glencoe
  • Glencoe (Erin and Emil) at Bio-IT World this week.
• BioVisionCenter (Joel)
  • upcoming release of 1.0 version of OME-Zarr converters https://github.com/BioVisionCenter/ome-zarr-converters-tools
    • Converter implementations: https://github.com/fractal-analytics-platform/fractal-uzh-converters, https://github.com/fractal-analytics-platform/fractal-lif-converters
  • Open Bioimaging meetup planning: Open Bioimaging Practices Meetup with Bugra Oezdemir on June 30th, 4pm CEST about OME-Zarr conversion and EuBI-Bridge
• Community
  • ELMI: 2nd half of June: OMERO workshop (Petr)
    • Johannes attending too
  • Tom: French BioImaging Community meeting, including Round-table data management discussion. 1-3 June

AOB

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

Main Topic

(20-25 minutes plus 15 minutes questions max)