Cannot Install genefilter
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Entering edit mode
Francis • 0
@952ba27c
Last seen 2.4 years ago
Philippines

Hello! BioConductor beginner here (trying to use as part of an exercise in an R course I'm taking). I couldn't for the life of me get genefilter to work. For background, I'm using MacOS BigSur on an M1 machine.

I tried to install the code according to the course instructions:


install.packages("BiocManager")
BiocManager::install("genefilter")

And resulted in the following error message"


make: /opt/R/arm64/bin/gfortran: No such file or directory
make: *** [ttest.o] Error 1
ERROR: compilation failed for package ‘genefilter’
* removing ‘/Users/kapicapistrano/Library/R/arm64/4.2/library/genefilter’

The downloaded source packages are in
    ‘/private/var/folders/pl/85h7h3hs1d3bcq9qycm110z40000gn/T/RtmpGZREca/downloaded_packages’
Warning: unable to access index for repository https://bioconductor.org/packages/3.15/bioc/bin/macosx/contrib/4.2/genefilter_1.78.0.tgz/src/contrib:
  cannot open URL 'https://bioconductor.org/packages/3.15/bioc/bin/macosx/contrib/4.2/genefilter_1.78.0.tgz/src/contrib/PACKAGES'
Warning message:
In install.packages(...) :
  installation of package ‘genefilter’ had non-zero exit status

Before this, I got several "Warning: unable to access index..." messages and a prompt to attempt to install from those sources. Appreciate getting some help, thanks in advance.

Detailed Session Info:

sessionInfo( )

R version 4.2.0 (2022-04-22)
Platform: aarch64-apple-darwin20 (64-bit)
Running under: macOS Big Sur 11.6

Matrix products: default
LAPACK: /Library/Frameworks/R.framework/Versions/4.2-arm64/Resources/lib/libRlapack.dylib

locale:
[1] en_US.UTF-8/en_US.UTF-8/en_US.UTF-8/C/en_US.UTF-8/en_US.UTF-8

attached base packages:
[1] stats     graphics  grDevices utils     datasets  methods   base     

other attached packages:
[1] Biobase_2.56.0      BiocGenerics_0.42.0 BiocManager_1.30.18

loaded via a namespace (and not attached):
[1] compiler_4.2.0 cli_3.3.0      tools_4.2.0
genefilter • 916 views
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