tags: Tuesday —

2025-12-09

Attending: Josh, J-M, Dom, Frances, Damien, Will, Joel, Melissa, Kyle, Seb, David, Erin, Tom, 2:14: Chris, Andreas, Kevin

Start: 2:00 pm UK

Accepting minutes from last meeting

Project Status

(2-3 minutes each)

• IDR (Frances)
  • Next release planned for January
  • idr0171 for next release - Compound screen Jens - NFDI4BI data steward
  • Next release will include BioFile Finder
• OMERO (Tom)
  • Hackathon last week: 15 on-site, 7 remote
  • Work on various plugins: figure, iviewer, parade, napari.
    • Lots of PRs opened or in progress
    • Slides https://zenodo.org/records/17856704
• Bio-Formats (Melissa)
  • Finishing prep work for 8.4.0 Jan 15th
  • Jan 19th special formats meeting on OME-XML schema
    • Monday 2pm if anyone interested in joining
• NGFF (Josh)
  • Progressing towards 0.6.dev3 - announcement on image.sc soon. Also see main branch of ngff-spec. PR for dev3 based on hackathon work (small changes)
  • JM: Niraj worked on adding OME-Zarr support in 3D-slicer at the OMERO hackathon
  • Investigations into transformations in rust
• GerBI (Josh)
  • Ramping up work on metadata (Damien, Tiago)
  • includes RO-Crate (also to some extent in rust)
• Glencoe (Erin)
  • Latest release notes are on our website (note Django changes, OME-Zarr/bioformats2raw work):
    • OMERO Plus
    • PathViewer
    • Glencoe’s Bio-Formats
  • Seb: publishing minor update of OME-TIFF specification (motivated by raw2ometiff)
    • https://github.com/ome/ome-model-documentation/pull/7 schema
• BioVisionCenter (Joel)
  • Progress towards OME-Zarr 0.5 support in ngio continues. Our 0.5.0 release is close https://github.com/BioVisionCenter/ngio
  • Work this December on conversion tooling, focused on use cases with handling tiling during conversion to combine many FOVs into a single OME-Zarr image: https://github.com/BioVisionCenter/ome-zarr-converters-tools
  • November OME-NGFF hackathon summary blog post in the backlog
• Community
  • Petr workshop in Brno and OMERO Hackathon last week

AOB

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

• GH Org update (Josh/Seb) (worksheet)
  • Downgraded gh/openmicroscopy to free - don’t pay for unused build time. Small number of repos now
  • Changed default permissions on gh/ome: private repos not visible to others
  • Migrated data_repo_config to gh/ome
  • Open questions:
    • Wikis on private repositories will be lost on migration from paid to free(see mgmt tools)

Main Topic

(20-25 minutes plus 15 minutes questions max)