2023-01-17

Attending: Will, Petr, Dom, Josh, Jean-Marie, Frances, Chris, Tom, Richard, David, Seb, June, Jason, Khaled, Kyle, Wilma, Andreas, David Stirling, Melissa,

Start: 2:00 pm UK

Accepting minutes from last meeting

Project Status

(2-3 minutes each)

• IDR (Frances)
  • prod113 released this morning. idr0137 and idr0145
  • HPA antibodies (9 datasets to follow in next release)
  • Next release to focus on search work (search for studies)
  • Aiming to release 30th January
  • Jason: tweets? Frances: yes, after meeting
• OMERO (JM)
  • omero-web release 5.17.0 is out
  • Removed draft from dependencies related PR (included in the build tomorrow) and Chris’s session PR
  • web planning call tomorrow
  • Will: figure update ongoing - needs CI update (node.js)
• Bio-Formats (David)
  • Reviewing open PRs for next release - end of month
• NGFF
  • multiplexed meeting in Zürich (last week)
    • good feedback and lots of interest
    • …including in R: to image or not to image (user Python for images and R for tabluar data)
    • Fractal framework is interested: https://github.com/fractal-analytics-platform
    • SpatialData & Parquet
      • Chris: seems to be a +1 for the strategy of opaque things in Zarr.
  • calls (recent and upcoming):
    • Janelia: new FAIR appointment
    • ITK
    • HDF
    • Zeiss
  • zarr-java:
    • community interest in “support” of jzarr
    • status?
      • Chris: need to get back to scalableminds and get a roadmap worked out.
      • Plan for what to do with some of the libraries in the interim.
      • i.e. get dependencies into a state that people can work on them.
      • ETA end of January.
  • paper
    • nearly text from all
    • next: work on figures
    • Frances: upcoming light sheet data that might be useful
  • tables spec
    • what it takes to get it over the line?
    • Will: only one dataset
    • don’t think it will currently support spatialdata
    • Will: have used prototype repo from Kevin.
    • Josh: need to start working towards implementations if the specification is solid(ifying).
• GerBI (Tom):
  • Hive OMERO installation: connection issues accessing Hive (server itself is fine). Windows/Hive.
  • websockets is potential solution, or running Ubuntu on Windows
  • Chris: how installing omero-py? Tom: using conda
• Glencoe (Chris):
  • see above
• Community
  • Meeting OME-SSBD. Dundee ~Mar 1-6
  • From Carole Goble: EOSC-Life Defragmentation TS2 and THE NEUBIAS conference, Porto, 8-12 May 2023
  • see https://www.openmicroscopy.org/events/ :tada:
  • Chris: associate staff – anything we need to do? JRS: everyone renewed.
    • Wilma: unclear whether or not that means an ID card. Definitely a staff ID number.

AOB

• OME Team: Annual Leave

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

Main Topic

(20-25 minutes plus 15 minutes questions max)