2021-08-17

Attending: Will, Seb, Jean-Marie, Josh, Muhanad, June, Khaled, Jason, Kevin, Petr, Wilma, David, Chris, Melissa, Emil, Erin,

Start: 2:00 pm UK

Accepting minutes from last meeting

Project Status

(2-3 minutes each)

• IDR
  • prod100: next release on schedule for end of month.
    • 3 new studies
    • on embassy cloud
  • Resources migration
    • all production systems now on embassy cloud
    • analysis notebooks links etc need updating
    • Seems the ‘idr’ bucket is not available
    • JM: use proxy for links to binder etc so we don’t have to re-annotate many studies if URLs change
• NGFF
  • v0.3 board - go or no go?
    • Will go ahead if no objections
    • Java stack will need updating - just bump version number
  • SMLM: tabular data and advanced indexing. HMS/4dn. Single molecule. pytables, needs indexing. ~ 11 million rows. Starfish for moving data
  • ome-types: JSON-LD.
    • Tally’s python stack similar to omero Java model stack
    • Josh: will start to explore
  • Seb: comparing omero-cli-zarr vv bioformats2raw exporting from OMERO. Give data of different sizes?
  • Paper: Jason: last sentances & typos.
    • Added supplemental info
  • JM: testing conversion pipeline on Windows for idr submitters
• Releases
  • J-M: Looking into introduction ShapeColumn
  • Need to support multiple RoiColumn in one table (tree of cell lineages)
  • Chris: flipping and rotation of images/rois in OMERO / model?, e.g. in OMERO.figure
• Glencoe
  • Emil Auth service. Link to OMERO.web auth
  • Compression. Configurable or different for different regions of the image - e.g. for background
    • Add to .zarray metadata
    • Josh: no chunk-level metadata currently
  • Emil: to look at OMERO cpp
• Community
  • Dundee library image repo. Need to control access.

AOB

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

Main Topic

(20-25 minutes plus 15 minutes questions max)