2022-07-05
Attending: Dundee: Will, Petr, Jason, June, Remote: JM, Dom, Frances, David, Josh, Andreas, Seb, Melissa, Suzanne, Melissa, Muhanad, Erin, Kyle, Mina, Stefanie WP,
Start: 2:00 pm UK
Project Status
(2-3 minutes each)
- IDR
- idr0133 released today - Cell Painting screen from Broad institute
- Archiving test: small study idr0100 archived OK. Next test a bigger study
- Search UI, incremental changes ongoing
- Search-engine api released. JM to update notebooks.
- Bio-Formats
- 6.10.1 roadmap
- Review dependencies for ZarrReader and OMERO
- Performance improvements to OME-Tiff
- Release after holidays
- NGFF
- bioformats2raw.layout - discussed at BF meeting yesterday
- OK to move forward? Any vetoes
- Add to 0.4 spec
- JZarr off the ZIC
- alternatives?
- JM: lib still supported? - yes, but v3 won’t be supported
- Chris: may need to fork various libs
- Java development (Janelia/EMBL)
- Tables + Transforms in 0.5 spec release
- Kevin and John Bogovic
- What client support - how to document what clients support what spec?
- Chris: also need to work on S3 access (choose a library, develop on it, etc.)
- Melissa: writing up a spec based on the PR for series indexes
- Glencoe
- Community
- Jason: OME-meeting: couple of invited speakers. Lots more to do…
- TIM 2023 discussion: March 20-24
AOB
(5 min. max; tech. Discussion should be highlighted to relevant people and rescheduled)
Main Topic
(20-25 minutes plus 15 minutes questions max)
- I3Dbio GerBi and OME
- Stefanie:
- i3d:bio project - community of OMERO users
- funding for positions to support users
- How to collaborate with OME team to handle support?
- See https://forum.image.sc/g/i3dbio
- Request/interest from Göttingen (large multi-site OMERO incl. Max Planck)
- issue with Abberior format
- collaborate over image.sc or other channels / private discussion
- could potentially make use of https://mattermost.gerbi-gmb.de/
- Jason: great to see community develop in Germany
- Could discussions start on image.sc (instead of move there later?)
- Stefanie: discussions can be less organised with many users - commercial discussions not suitable
- Jason: new PFF not supported by open-source
- bridge Slack with other channels: https://github.com/42wim/matterbridge
- Stefanie: communication important so as to not duplicate/waste effort
- Jason: So much to work on. collaborate on repos?
- Add I3Dbio reporting to our adgenda
- OME team to join I3Dbio meetings?
- Stefanie - I3Dbio happy to contact OME as needed
- Jason: happy for I3Dbio or others to join OME meetings - issues with sharing agenda (google docs etc)
- Jason: knowledge of using tech/tools often lags behind the tool capability
- Seb: Abberior (OBF) example is a complex one because of their developers’ involvement
- e.g. https://github.com/ome/bioformats/pull/3528
- Chris et al.: presenting a unified front
- JM: good to collaborate on documentation
- Chris: Format discussions 1 to 1 with vendors less effective than showing community need in public discussion
- In future: create HackMD agenda a week ahead and share link - e.g. slack.
