dependency 'liger' is not available

JEFworks-Lab / STdeconvolve

Reference-free cell-type deconvolution of multi-cellular spatially resolved transcriptomics data

http://jef.works/STdeconvolve/

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dependency 'liger' is not available #59

Closed LX2006 closed 1 month ago

LX2006 commented 2 months ago

Just a heads-up that the package ‘liger’ was removed from the CRAN repository on 2024-06-14. As a result, you will encounter an error message stating that the dependency 'liger' is not available for the package 'STdeconvolve'.

A temporary workaround is to install ‘liger’ from the CRAN archive before installing ‘STdeconvolve’ :

install.packages("https://cran.r-project.org/src/contrib/Archive/liger/liger_2.0.1.tar.gz", repos = NULL, type = "source")

It would be great to fix this issue permanently.

JEFworks commented 2 months ago

Thanks for the heads up!

Since LIGER is on Github (https://github.com/JEFworks/liger), my sense is that using remotes will provide a more permanent solution: https://remotes.r-lib.org/articles/dependencies.html

So the DESCRIPTION file can be updated to remove liger from the Imports: list and instead add Remotes: JEFworks/liger

JEFworks commented 1 month ago

Closing as this should be resolved in commit 380d134da0d78c0b439ed532aecee0f1aab1ab11