Closed EliHei2 closed 4 days ago
Hola! Well spotted 🥸 Fixed with https://github.com/scverse/spatialdata-io/releases/tag/v0.1.2, which also adds the parameter aligned_images: bool
, to skip some extra H&E or IF images sometimes present in more recent datasets.
Thanks Luca! Sorry for opening again, there's another error still, which I can guess where's it from (i.e., not reading cell boundaries) but leave it here:
line 344, in _get_polygons
assert index.equals(idx)
AssertionError
Got back to this today. I have tried to replicate with the same argument but that line doesn't give me an error. I think the bug is now solved.
If you encounter it please feel free to reopen; in such a case please detail a link to a public dataset that can be used to replicate the bug, and to the code used to call the xenium()
function.
Hola! just updated both
spatialdata
andspatialdata-io
trying to read a generic xenium dataset with the following line, I get the error bellow: