From 419eb0f6e39108929c5965625368b555f193f8cd Mon Sep 17 00:00:00 2001 From: Will Moore Date: Tue, 13 Feb 2024 15:34:26 +0000 Subject: [PATCH] Add 2024-02-13.md --- 2024/2024-02-13.md | 69 ++++++++++++++++++++++++++++++++++++++++++++++ 1 file changed, 69 insertions(+) create mode 100644 2024/2024-02-13.md diff --git a/2024/2024-02-13.md b/2024/2024-02-13.md new file mode 100644 index 0000000..01099cc --- /dev/null +++ b/2024/2024-02-13.md @@ -0,0 +1,69 @@ +--- +tags: Tuesday +--- + +# 2024-02-13 + +Attending: Will, Dom, Petr, Frances, Josh, June, JM, Kevin, Jason, David S, Chris, Tom, Khaled, David, Maadhav, Melissa, Andreas, Kyle, + +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): + - NGFF issues: Khaled installing microservices working on idr-testing. + - Need to regenerate cache. Will: Deleting first... + - Chris: Just move it first, then can delete later + - David working on ZarrReader memo file generation + - e.g. idr0090 has large memo files ~110M slow to load. + - Lots of structured annotations from nd2 file + - Stripping back annotations gives smaller file and this appears faster to load (testing with idr0090) + - zipkin.io tracing used by Glencoe for microservices + - Needs quite a bit of work to function properly + - Josh: would like low-cost option to improve situation + - Chris: can be more trouble than it's worth + - Kevin: then you need prometheus & grafana to aggregate. Big ecosystem! Maintenance admin burden. + - Chris: limited opensource tools. Better solutions have costs. + +- OMERO + - testing Python https://docs.google.com/spreadsheets/d/1zI3vlcTLp7okz_Mi2LHK40NxwCkGXUGHgDqgCd7jP_A/edit#gid=1254367109 (omero-py and omero-web python 3.12 support). Needs more testers (see sheet and add name). + - Aim for Thursday? Using merge-ci server. + - When done, can migrate merge-ci to RHEL9. + - Petr: can test async - don't need to be on same call. + - JM: add name to sheet, and test in your own time. + +- Bio-Formats + - 7.2.0 released last week. svs and czi changes. + +- NGFF (Josh) + - NGFF office hours on Wednesdays + - NGFF RFC status update. RFC1 (current) and RFC0 (previous) + - zarr-python: discord :arrow_right: zulip - common hosting + - https://github.com/ome/ome-ngff-validator/pull/32 - implementing transforms etc ahead of spec being finalised + - JM: automated testing of validator? + +- GerBI (Tom) + - Analysing histology data in Fiji use-case. Pierre Pouchin. Failing to load all data into memory. Trying to load regions + - https://github.com/GReD-Clermont/omero_macro-extensions/pull/19 + - JM: good to add this to our guides + +- Glencoe (Chris) + - Bio-Formats working with regions of interest is tricky. + - Single sign-on with light Admin - web with sudo'd sessions. + - poor handling of long usernames and passwords. + - TileDB research with OMERO.tables. Preparing data on s3. Links to come + +- Community + - Jason: The wonderful OME Community Meeting. Community interested. Limited room availability. Checking dates around end of May. + +## AOB + +(5 min. max; tech. Discussion should be highlighted to relevant people and rescheduled) + +## Main Topic + +(20-25 minutes plus 15 minutes questions max)