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drisso / SingleCellExperiment

Clone of the Bioconductor repository for the SingleCellExperiment package, see https://bioconductor.org/packages/devel/bioc/html/SingleCellExperiment.html for the official development version.
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error when using assay() #64

Open FionaMoon opened 2 years ago

FionaMoon commented 2 years ago

Hi, I got error every time when I try to get count assay from TENxPBMCData, and it doesn't happen before. Here's my code:

# BiocManager::install('TENxPBMCData') # (286 KB)
library(TENxPBMCData)
args(TENxPBMCData) 
tenx_pbmc4k <- TENxPBMCData(dataset = "pbmc4k")
tenx_pbmc4k
ct = as.data.frame( assay(tenx_pbmc4k))

I got error like this:

Error in .Call2("C_h5getdimscales", filepath, name, scalename, PACKAGE = "HDF5Array")

Thank you inadvance for your reply. Fiona

drisso commented 2 years ago

Hi @FionaMoon ,

I cannot reproduce this on my end. Would you mind sharing the results of sessionInfo() and confirm that BiocManager::valid() returns TRUE?