Sébastien Besson

Since it was only 100G in total, all 55 plates have been uploaded to the S3 bucket for validation. Also zipped them in-place using ``` $ for i in $(ls...

Was the bucket mounted both on the read-write VM and the read-only VMs (which are the ones accessed by the idr-testing endpoint)?

> @sbesson no, I'll try... - I also wondered if the ZarrReader updates need to be applied across all VMs? If you are departing from the release 0.3.1 artifact was...

That should work out of the box as the OMERO binary repository should be shared between the read-write VM and all read-only VMs.

One thing worth investigating is that the latest OMERO.server release, 5.6.8, was deployed on `test120` as opposed to OMERO 5.6.7 on `pilot-idr0125`. In terms of underlying library changes, Bio-Formats was...

That's the HAproxy application which is balancing the load between read-only servers and responding to the service getting restarted. If you look at `/var/log/messages` under the proxy server, you will...

As discussed during the weekly IDR calls, the following commands aim to measure the initialization time for several of the IDR datasets converted to NGFF in order to benchmark/assess the...

> /data/OMERO/ManagedRepository/demo_2/Blitz-0-Ice.ThreadPool.Server-2/2023-05/11/22-57-46.368_converted/bia-integrator-data/S-BIAD845/05a03696-ccf5-4262-b5e3-092d9633d2e2/05a03696-ccf5-4262-b5e3-092d9633d2e2.zarr/ngff/HT20.ome.zarr/ That's a deep file path. Have we established this is truly necessary or could we truncate it up to the top-level `.zarr` directory ? The regular import logic...

@will-moore not 100% sure of what went wrong on your conversion but using the [converter library](https://github.com/IDR/bioformats2raw/releases/tag/v0.6.0-24) shipping with the current IDR version of Bio-Formats, I get ``` $ /opt/bioformats2raw/bioformats2raw-0.6.0-24/bin/bioformats2raw -p...

I suspect there's something wrong with your environment and particularly the `bioformats2raw` Conda environment that you're using. Can you try deactivating Conda completely and simply running `/opt/bioformats2raw/bioformats2raw-0.6.0-24/bin/bioformats2raw /uod/idr/metadata/idr0026-weigelin-immunotherapy/patterns/3.49.6-3.140922_11-33-57.01.pattern 3.49.6-3.140922_11-33-57.01.ome.zarr` ?