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I would like to create this issue, also discussed in https://imagesc.zulipchat.com. It seems OmeTiffWrapper objects behave well with AnnDataWrapper with no problem, but are there any plans for implementing an OmeZarrWrapper functioning similar to OmeTiffWrapper ?
I am getting an error while adding the MultiImageWrapper object to the VitessceConfig object. Did you also encountered the same issue while running your code?
vc <- VitessceConfig$new(schema_version = "1.0.15", name = "My config")
vc$add_dataset("T604")$add_object(
MultiImageWrapper$new(
image_wrappers = list(
OmeTiffWrapper$new(name="Test", img_path="data/cytassist_image.tiff")
)
)
)
Error in obj$convert_and_save(self$dataset$uid, length(private$objs), :
unused argument (base_dir = self$base_dir)
Ah ok, I think I have corrected this in my fork as well. You have to pass the self$base_dir from MultiImageWrapper's convert_and_save to OmeTiffWrapper's convert_and_save, like in here: a6dd34f.
Hey there,
I would like to create this issue, also discussed in https://imagesc.zulipchat.com. It seems
OmeTiffWrapper
objects behave well withAnnDataWrapper
with no problem, but are there any plans for implementing anOmeZarrWrapper
functioning similar toOmeTiffWrapper
?Sharing an example below:
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