Error with spatialdata_io.xenium() reader

[enric-bazz]

Hi,
I was trying to read a Xenium dataset donwloaded from the 10XGenomics portal at https://www.10xgenomics.com/datasets/xenium-ffpe-human-breast-biomarkers, with Xenium version 4.0.0. with the xenium reader, but I get this error:
'The file "/path/to/xenium/folder/morphology_focus.ome.tif" does not exist.'

I noticed the source code reads the "analysis_sw_version" of the '.xenium' file to asses the current version and it expects "xenium-4.0.0" for this case, but what I read in my 'experiment.xenium' is "analysis_sw_version": "R&D". I believe this might be the reason of this error occurring.

[LucaMarconato]

Thanks for reporting. Seems indeed to be an error in the metadata for that dataset. Looping in @stephenwilliams22

A xenium_version optional argument may be added to the xenium() reader to let the user manually specify a version in cases like this when the version is known but it cannot be inferred by the dataset metadata.

[stephenwilliams22]

Thanks @LucaMarconato. We're looking into this.