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satijalab / azimuth

A Shiny web app for mapping datasets using Seurat v4
https://satijalab.org/azimuth
GNU General Public License v3.0
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Cannot find directory #79

Open m0nib opened 3 years ago

m0nib commented 3 years ago

Hi,

When providing a path to local 'downloaded reference file' I keep getting a following error

Warning: Error in : Cannot find directory /home/monib/R/cellxgene/data/lung_ref.Rds 55: stop 54: LoadReference 50: server Error : Cannot find directory /home/monib/R/cellxgene/data/lung_ref.Rds

i tried to provide a config file with a path to local file, however, same error.

Any suggestions as to why this is happening or how to fix it?

Thank you Monib

m0nib commented 3 years ago

Got it working, had to provide a directory containing with both ref.rds and idx.annoy.

If the ref and idx names are changed the shinny app does not pick it up.

Maybe that can be clarified in the "Running the app" section.

zhangdudu0 commented 2 years ago

Hello！ I provide a directory with ref.rds and idx.annoy but it still doesn't work, what does this error mean

> pbmcsca1 <- RunAzimuth(pbmcsca, reference = "pbmcref/inst/azimuth/")

Error in curl::curl_fetch_memory(url, handle = handle) : 
  Timeout was reached: [seurat.nygenome.org] Operation timed out after 60000 milliseconds with 654989 out of 3458249 bytes received