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'getOption("repos")' replaces Bioconductor standard repositories, see '?repositories' for details
replacement repositories:
CRAN: https://cran.rstudio.com/
Bioconductor version 3.16 (BiocManager 1.30.19), R 4.2.2 (2022-10-31)
Installing package(s) 'glmGamPoi'
trying URL 'https://bioconductor.org/packages/3.16/bioc/bin/macosx/big-sur-arm64/contrib/4.2/glmGamPoi_1.10.0.tgz'
Content type 'application/x-gzip' length 1203942 bytes (1.1 MB)
==================================================
downloaded 1.1 MB
The downloaded binary packages are in
/var/folders/p6/kg78pkcj1pl9d5jvdnzqv9_80000gn/T//Rtmpu5D79C/downloaded_packages
But when I want to load it:
> library(glmGamPoi)
Error: package or namespace load failed for ‘glmGamPoi’ in dyn.load(file, DLLpath = DLLpath, ...):
unable to load shared object '/Library/Frameworks/R.framework/Versions/4.2-arm64/Resources/library/glmGamPoi/libs/glmGamPoi.so':
dlopen(/Library/Frameworks/R.framework/Versions/4.2-arm64/Resources/library/glmGamPoi/libs/glmGamPoi.so, 0x0006): Library not loaded: /opt/R/arm64/gfortran/lib/libgfortran.5.dylib
Referenced from: <061876AD-F243-302F-BE08-11C179EA3B02> /Library/Frameworks/R.framework/Versions/4.2-arm64/Resources/library/glmGamPoi/libs/glmGamPoi.so
Reason: tried: '/opt/R/arm64/gfortran/lib/libgfortran.5.dylib' (no such file), '/System/Volumes/Preboot/Cryptexes/OS/opt/R/arm64/gfortran/lib/libgfortran.5.dylib' (no such file), '/opt/R/arm64/gfortran/lib/libgfortran.5.dylib' (no such file), '/usr/local/lib/libgfortran.5.dylib' (no such file), '/usr/lib/libgfortran.5.dylib' (no such file, not in dyld cache)
```
My suggestion is to remove the package, restart R. Precisely follow https://mac.r-project.org/tools/ and then try again. I got a new ARM-based Mac just a few weeks ago and after doing the linked steps had not a single issue with Bioconductor so far.