2024-09-24
Attending: Will, Dom, Jason, JM, Petr, Maadhav, Frances, Seb, Khaled, Kyle, Melissa, David S, Chris, Erin,
Start: 2:00 pm UK
Project Status
(2-3 minutes each)
- IDR Frances: working on study idr0158, human lymph node sections. Lots of antibodies, e.g 30-40 per image. Submitter used antibody kits. One ID (links to kit) includes several names/targets. Need to update antibody annotations: Name and Identifier (similar to Genes). Will affect search and gallery. Previously, antibody search was by ID. Needs to include search by target name.
- NGFF challenge: idr0157, idr0090, idr0044 done, and some others ongoing… See NGFF below.
- OMERO
- systems have been down. Back to normal now.
- Bio-Formats - Melissa: ome model issues reviewed, See https://docs.google.com/document/d/1twj5KHNZsOSkvDYqTtGdegor8IIwvcD2xOTa376i7Uc/edit. Schema update TBD. Feedback on the doc.
- Seb: imaris response in prep
- NGFF
- Will: ngff-challenge, focussing on viewing results. Feedback welcome, e.g. on the PR.
- Jason: link to ngff-challenge data from IDR
-
GerBI
- Glencoe
- Chris: OMERO.tables API investigation wrt using other storage solutions in place of py-tables. Seb: API is poorly documented. Works for omero-web usage, but other edge-cases and uses are possible via API. Can get unexpected results.
- Erin: blog post in progress with content presented at recent meeting SBI2. https://www.glencoesoftware.com/blog/2024/09/18/complex-workflows.html
- Community
- OME systems update (hardware issue on Saturday): JM: all systems are back up.
- Migration will continue once a faulty component is replaced (unrelated)
- Wellcome Funding update. -> May 2029. File formats and IDR. Maturing OME-NGFF spec, including metadata. Multi-modal and correlative imaging - modelling and viz. See proposal in docs.
AOB
(5 min. max; tech. Discussion should be highlighted to relevant people and rescheduled)
- OME resource Migration Plan
Main Topic
(20-25 minutes plus 15 minutes questions max)
