2022-04-05
Attending: Will, Petr, Frances, Seb, Dom, Susanne K, Jean-Marie, Josh, Wilma, June, David, Kyle, Melissa, Chris, Khaled, Jason, Emil, David S, Mina, Erin, Andreas,
Start: 2:00 pm UK
Project Status
(2-3 minutes each)
- IDR:
- Datasets: next release will contain 3 studies (3 viruses) from 1 publication. End of this month
- “Exploring IDR” videos from Petr, now on IDR front page
- Bio-Formats:
- ZarrReader ongoing, last few issues
- NGFF
- Units - diversion between OME-NGFF spec and OME.xml
- Metadata testing
- pick a set of Datasets
- find storage
- convert to Zarr using known version of bioformats2raw, compare etc
- test in Fiji, cli tools for BF - show-inf etc.
- start with OME-TIFFs from download pages
- GBI workshop tomorrow. For beginners, Fiji-based
- Call for public data (other that IDR and EMBL)
- Testing on-going
- Napari and Data issues so far.
- URLs for re-use on webpage?
- Get Your Brain Straight this week
- on image.sc island and imagesc.zulipchat.com
- DANDI pre-chats ongoing - hackathon 21st April
- OMERO
- Looking at GitHub action to improve release workflow, on-going discussion
- Moving to manual steps for upcoming release (mid-April)
- Glencoe
- See units above
- omero-web PR for showing versions
- omero-metadata PR - merged
- Kevin’s NGFF OMERO work: Chris creating new repos. PixelBuffer to lookup OME-NGFF from OMERO. Updating jars in OMERO. jzarr SDK v1 end-of-life.
- extensions to import infrastructure
- Community
- Preparing/Reviewing material for upcoming I2K workshop and EMBL/EBI course
- I2K workshop video due 27th April
AOB
(5 min. max; tech. Discussion should be highlighted to relevant people and rescheduled)
Main Topic
(20-25 minutes plus 15 minutes questions max)
Susanne: I3D:bio
- OMERO-focussed
- OMERO.mde
- Electronic Lab Notebook - connection to OMERO
- 3 positions, 3 years. 1 developer
- 10 - 15 production OMERO servers currently
