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satijalab / seurat-data

Dataset distribution for Seurat
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Can't install data. Error: No access to remote SeuratData repository, unable to install new datasets #23

Closed lucygarner closed 3 years ago

lucygarner commented 4 years ago

Hi,

I have successfully installed SeuratData using devtools::install_github('satijalab/seurat-data') (version 0.2.1) and I am able to see available datasets using the AvailableData() command.

However, when I try to install the PBMC 3K dataset using InstallData("pbmc3k"), I get the following error:

Using cached data manifest, last updated at 2020-04-07 10:27:02 Error: No access to remote SeuratData repository, unable to install new datasets

What may be the reason for this? I have looked at the similar issues but have not been able to find a solution. I am using Seurat version 3.1.3 and R version 3.6.2.

Many thanks, Lucy

lvjackson commented 4 years ago

Hi I am having this same problem and I wonder if you found a solution? Thanks so much!

Leandra

lucygarner commented 4 years ago

Hi @lvjackson,

I am not sure exactly what the problem was. I have switched to R 4.0.0 now with Seurat 3.1.5 and SeuratData 0.2.1 and it seems to be working fine.

Best, Lucy

bethrusnak commented 4 years ago

I also have this issue. Using R-4.0.3, Seurat 3.2.2, SeuratData 0.2.1

andrewwbutler commented 3 years ago

It's possible you could see this if your internet connection is unstable/down. Hopefully this is resolved but feel free to reopen/comment if not.

leezx commented 2 years ago

I think it's better for Seurat to provide explicit download link for each dataset. However, they wrapped the download link/process with complicated R code. After look into the code, I found each dataset is a individual R package. Here is the direct R code to download it. install.packages("thp1.eccite.SeuratData", repos="http://seurat.nygenome.org/", type = "source"). You can change the datasets to whatever you want that presented in the AvailableData().

arnavaz commented 8 months ago

Hi, is it possible to to run the function RunAzimuth() without internet connection? thanks, Arnavaz