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Issues with reading in non zarr format Visium HD data in python #3341

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ankshe opened this issue Nov 5, 2024 · 0 comments
Open
2 of 3 tasks

Issues with reading in non zarr format Visium HD data in python #3341

ankshe opened this issue Nov 5, 2024 · 0 comments
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Bug 🐛 Triage 🩺 This issue needs to be triaged by a maintainer

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@ankshe
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ankshe commented Nov 5, 2024

Please make sure these conditions are met

  • I have checked that this issue has not already been reported.
  • I have confirmed this bug exists on the latest version of scanpy.
  • (optional) I have confirmed this bug exists on the main branch of scanpy.

What happened?

Hi
I am trying to read in my Visium HD file which is in non-zarr format.
Here is the error that I get.

Minimal code sample

from spatialdata_io import visium_hd
import spatialdata as sd

path_read ='...'
sdata= visium_hd(path_read)

Error output

Its says the dataset_id needs to be specified, but there isn't a dataset_id in my folder.
I tried specifying dataset_id="None" or just blank or some possible names from my parent folder that could be it.
But it does not read it.

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@ankshe ankshe added Bug 🐛 Triage 🩺 This issue needs to be triaged by a maintainer labels Nov 5, 2024
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