tags: Tuesday —

2024-08-13

Attending: Will, Andreas, Frances, Khaled, Kyle, Melissa, David, Muhanad, Seb,

Start: 2:00 pm UK

Accepting minutes from last meeting

(2-3 minutes each)

IDR
- Frances: software release (svs idr0043 fix and Microservices deployment).
- Deploy on idr-testing today and team testing tomorrow. If OK, then update production server directly.
- Will: ome2024-ngff-challenge. Testing conversions from zarr v2 -> v3, fixing issues at https://github.com/ome/ome2024-ngff-challenge/pull/23
- Added a couple of examples to README at https://github.com/ome/ome2024-ngff-challenge/pull/26
- Trying to convert idr0048 image (>100 GB) have failed (OOM) on pilot-zarr3-dev. Now manually writing chunks one at a time (see last commit above). Will take over 3 hours (still running).
- Goal is to convert idr0044 image (9TB). Not ready yet! Only 4TB free on pilot-zarr3-dev
- Not tested plate conversions yet (Dom looking at that).
OMERO:
- Seb: upcoming server release to address old log4j jar included in the build (unintented artifact of the build system). image.sc post describes how to remove extra jars. No security risk AFA we can tell.
  - release on JM’s return (end of this week or early next week at latest)
  - Don’t hold up IDR release. Can remove extra jars manually
Bio-Formats
- David: see IDR update above. Final checks this afternoon. Wider team testing tomorrow.
- External PR (imaris) from Bitplane. Needs feedback.
NGFF
GerBI
Glencoe
Community
- BINA OME meeting, May 2025.
- Grants submitted and positive feedback, witing on final confirms.
- Paper with UGM team to be submitted this week.

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

(20-25 minutes plus 15 minutes questions max)