2024-02-20

Attending: Will, Dom, Frances, June, Khaled, Josh, Andreas, Erin, David, Maadhav, Kyle, Kevin, Melissa, Tom, Petr, Muhanad,

Start: 2:00 pm UK

Accepting minutes from last meeting

Project Status

(2-3 minutes each)

• IDR (Frances):
  • testing microservices
  • persisting issues
    • goofys mount had disappeared, led to memofile issues.
    • memo files get deleted if ZarrReader or BioFormats version differs from those used to create memo files
    • ZarrReader release with update that strips out structured annotations from memo file to reduce size and allow faster loading.
    • Update this on idr-testing. memo file regeneration in progress

• OMERO

• Bio-Formats
  • Melissa: discussed Java 21 yesterday. PR open to add Java 21 build to gh actions - passing! Will announce support…
• NGFF (Josh)
  • zarr v3 rfc. Will review…
  • hyper-spectral / event-based file format request from community
    • store as event-based log? -> visualise as image. Needs investigation
  • metadata discussions, incl. (GIDE) BioImage Archive, Riken etc.
    • What’s our role?
• GerBI (Tom)
  • setting up new servers with Rocky Linux 9 etc.
  • OMERO.figure testing (vite PR)
• Glencoe (Erin)
  • Thanks to Petr for help with OMERO.web testing
  • Kevin/Chris looking a Zarr reading from s3 perf
    • s3fs implementation of Java File system does lots of checks (permissions, metadata etc.) Can avoid these in many cases.
    • Initial 2x or 3x perf improvements. Looking at RGB chunking now…
• Community (Petr)
  • Karolinska outreach - finalizing the disabled pyramid service (some users images not viewable) clarifications, good outreach though
  • 7th-8th March the University Gadjah Mada Yogyakarta, Indonesia outreach
  • OME community meeting dates 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)