Dominik Lindner

👍 It finally worked with `export JAVA_OPTS="-Xmx50G"` !

Oh, I should test a different image then. Didn't notice that this submission had different file formats.

Also converted one of the pattern files, and re-imported. Worked fine. But the converted MMStack can't be re-imported, also memory issue: ``` 2023-03-07 11:54:22,437 17151 [ main] ERROR ome.formats.importer.cli.ErrorHandler -...

I'll start conversion to NGFF of the full dataset.

Converted files will be in `pilot-zarr1-dev:/data/idr0011`

👍 It is, thanks Will.

Fails with: ``` 2023-02-27 11:54:05,356 [main] WARN loci.formats.FormatHandler - Ignoring extra series for well #95 WARNING: An illegal reflective access operation has occurred WARNING: Illegal reflective access by com.esotericsoftware.kryo.util.UnsafeUtil (file:/home/dlindner/bioformats2raw-0.7.0-SNAPSHOT/lib/kryo-2.24.0.jar)...

I just used bioformats2raw, I didn't use any specific IDR reader version. Yes, probably easiest to use cli-zarr export. Let me try...

Unfortunately doesn't work either: ``` Exporting to P101.ome.zarr (0.4) Traceback (most recent call last): File "/home/dlindner/miniconda3/envs/myenv/bin/omero", line 11, in sys.exit(main()) File "/home/dlindner/miniconda3/envs/myenv/lib/python3.9/site-packages/omero/main.py", line 125, in main rv = omero.cli.argv() File...

Tried some other plates again with bioformats2raw, all failed with errors like ``` ... 2023-08-07 13:49:46,548 [main] WARN loci.formats.FormatHandler - Ignoring extra series for well #94 2023-08-07 13:49:46,586 [main] WARN...