2023-02-07

Attending: Will, Dom, Frances, Petr, Jean-Marie, Jason, David, Wilma, Khaled, Seb, Josh, Richard Acton, David Stirling, Kyle, Andreas, Erin, Chris, Muhanad,

Start: 2:00 pm UK

Accepting minutes from last meeting

Project Status

(2-3 minutes each)

• IDR (Frances):
  • release yesterday prod114:
    • search now supports studies etc. Feedback welcome
    • idr0146 lightsheet
    • HPA run 12 completed
  • meeting this morning to discuss IDR software upgrade to latest OMERO and Bio-Formats
    • need to convert some studies that require Bio-Formats fork into NGFF so we don’t need to maintain the fork
• OMERO (Andreas):
  • various PRs for omero-web nearing completion
  • preparing upgrade notes for web dependencies changes
• Bio-Formats (David):
  • 6.12.0 release: new features tested and merged
  • Aim to release on Thursday
  • run-through of release tomorrow to check steps/docs
• NGFF (Josh):
  • IDR upgrade
    • Test, Convert, Re-link, Repeat
      • overlap with Glencoe work?
    • Potential spec & performance issues may arise
  • Paper
    • Primary comments now accepted if anyone wants to read through again. (Especially look for re-ordering errors)
    • N5 comments resolved. Discussing with Preibisch tomorrow.
  • SWAT4LS next week (semantic web, Switzerland)
  • omero-cli-zarr: PR for big images

• GerBI:

• Glencoe (Chris):
  • omero-web PRs ongoing
  • expect more: versions, histograms
  • Bio-Formats: scalability, compressors
• Community:
  • SSBD visit planning in progress
  • JM: OMERO.figure notes from last week
  • Richard: NGFF support for transcriptomics? Josh - active progress in Python / JavaScript, not so good for Java

AOB

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

Main Topic

(20-25 minutes plus 15 minutes questions max)