2021-09-21

Attending: Will, Chris, Seb, Khaled, Jean-Marie, Petr, Dom, Josh, Muhanad, Jason, Andreas, Frances, Melissa, Wilma, Kevin, Erin, Emil

Start: 2:00 pm UK

Accepting minutes from last meeting

(2-3 minutes each)

IDR
- prod101 released today: idr0101 (in-situ sequencing) & idr0116 (EM)
- Over 100 million 2D planes now in IDR
- Fixed links to idr-analysis
- Jason: seeing more sequencing in imaging
NGFF
- OME-Zarr/Python:
  - Labels - napari changed format for labels.properties
  - Need more regular testing
  - Dom: export of multiple ‘collections’ of images
    - performance issues
- OME-Zarr/Java:
  - JSON parsing: inconsistent handling of doubles
  - Spec updates: ZarrReader v0.2 & v0.3 support
  - URLs in test suite
    - issues loading remote s3 URLs
  - Bio-formats doesn’t like to open directories
    - Must be named .zarr
- ngff paper nominally accepted
  - reduced word count
Releases
Glencoe
- ngff: jpeg2000 codec released for zarr
- axes in napari - channel needs to be last dimension for interleaved rgb
- isyntax-to-raw used for testing
- Melissa: new file formats support coming (Dicom)
Community
- Virtual workshop Turku mid-november

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

(20-25 minutes plus 15 minutes questions max)

Khaled: demo of searching app
Searching Key-Value pairs
Support AND OR NOT
Storing KVPs in hdf5 file
Async search (Celery + Redis) with task ID
Caching of query and results
Large features to keep in mind regarding design:
- invalidating cache(s)
- permissions