---
# System prepended metadata

title: '2025-06-03'
tags: [Tuesday]

---

---
tags: Tuesday
---

# 2025-06-03

Attending: Will, JM, Dom, Frances, Khaled, Kevin, Jason, Melissa, Kyle, Seb, Andreas, Chris

Start: 2:00 pm UK

## Accepting minutes from [last meeting](https://hackmd.io/team/ome?nav=overview)

## Project Status

(2-3 minutes each)

- IDR (Frances)
    - prod128 work ongoing
    - searchengine testing of re-indexing done (JM) and merged.
    - landing pages ongoing, deployed on [idr-testing](https://idr-testing.openmicroscopy.org/)

- OMERO
    - OMERO.server (Seb)
        - omero-model 5.7.3 released incl. Bio-Formats 8.2.0 and other dependencies upgrade e.g. Spring Framework 4.3.30
        - next components (next few days): omero-common, omero-romio, omero-renderer, omero-serve, omero-blitz, omero-gateway-java
        - TBD: when to release OMERO.server bundle
        - Next major dependency effort to be scoped post Summer: Spring/Hibernate. Large body of work, needs scoping.
    - OMERO.web (Andreas)
        - no updates this week

- Bio-Formats (Melissa)
    - 8.2.0 released last week. Moving towards 8.3.0...

- NGFF
    - Techdev update:
        - [3a](https://docs.google.com/document/d/10593fXrZ2pn74MstQIURSr7VIQxQaRz2hc90lQuOrZE/edit?tab=t.0) (import) JM: Python-only import “register” the zarr image. Create image using API using sizes and pixelType, then set ExternalInfo. No Fileset created.
            - Next: need to add support for non-5D images (for e.g. idr0167) to omero-zarr-pixel-buffer and support for EBI Embassy s3
            - Looking into Python only options to "import" ome-zarr files. 
        - [3c](https://docs.google.com/document/d/1WH4bIJWAj1q5GP6j0BVVfCGRdHyyRHRelkIc8_QZcwQ/edit?tab=t.0) (BioFile Finder): Discussed possible use in IDR workflow submission: combine list of zarrs from BIA with annotation.csv to create BFF file that might be useful for validation? Will: see [idr0125 in BFF](https://bff.allencell.org/app?c=File+Path%3A0.25%2CPlate%3A0.25%2CWell%3A0.25%2CWell+Number%3A0.25&source=%7B%22name%22%3A%22idr0125-screenA-annotation_bff.csv+%2803%2F06%2F2025+11%3A40%3A55%29%22%2C%22type%22%3A%22csv%22%2C%22uri%22%3A%22https%3A%2F%2Fraw.githubusercontent.com%2FIDR%2Fidr0125-way-cellpainting%2Frefs%2Fheads%2Fmain%2Fscripts%2Fidr0125-screenA-annotation_bff.csv%22%7D) from [csv_to_biofilefinder.py](https://github.com/IDR/idr0125-way-cellpainting/blob/main/scripts/csv_to_biofilefinder.py).
            - Jason: @will broken for me.
        - [3b/3d](https://docs.google.com/document/d/1SrqjyRrqT4IzSyO8BU9VPySyw1kc6-BT-FupUC5f2X8/edit?tab=t.0) (python libs): Will: more positive feedback received on ome-zarr-py [zarr v3 PR](https://github.com/ome/ome-zarr-py/pull/404). I think it’s ready for release of v 0.12.0rc1. Looks like a tag will trigger Pypi publish: [publish_pypi.yml](https://github.com/ome/ome-zarr-py/blob/master/.github/workflows/publish_pypi.yml)
        - Jason on a massive Plate export escapade with omero-cli-zarr
    - Next [OME NGFF Community Call](https://forum.image.sc/t/join-us-for-the-next-ome-ngff-community-call-on-june-24-9-00-cest-and-17-00-cest/113134)  June 24, 09:00 CEST and 17:00 CEST


- GerBI

- Glencoe (Chris)
    - see dependency updates above
    - Django 5.2 compatibility testing upcoming
    - Erin: SBI2 and other meetings later

- Community
    - Reminder: [OME Annual Meetings Talks](https://www.youtube.com/playlist?list=PLG5nZ7mF_r1pSzMmLkrLMnXt3dOhJxmnz)
    - Petr at ELMI

## AOB

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

## Main Topic

(20-25 minutes plus 15 minutes questions max)
