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(Non-breaking) issues with loadTaxonomy and checkTaxonomy #11

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jeremymiller opened this issue Feb 22, 2024 · 1 comment
Open

(Non-breaking) issues with loadTaxonomy and checkTaxonomy #11

jeremymiller opened this issue Feb 22, 2024 · 1 comment
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@jeremymiller
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loadTaxonomy issue
I keep getting this error when taxonomies are being created from a docker.
"Loading an older AIT .h5ad version. Converting dendrogram to JSON format for mapping."
I suspect that it is not correctly looking for the JSON format in the uns before rewriting it from the .RDS file.

checkTaxonomy issues
Even with a valid taxonomy, I get this issue
"WARNING: A UMAP is invalid or not provided in AIT.anndata$obsm$umap."
Probably some minor update needed.
Also, I think it only checks "standard" and not the other modes (e.g., AIT30.1)

@jeremymiller jeremymiller added bug Something isn't working easy labels Feb 22, 2024
@UCDNJJ
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UCDNJJ commented Apr 9, 2024

I handled the dendrogram message, essentially the print statement was in the wrong spot and typically didn't apply :).

UMAP is still unresolved.

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