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I had these issues when first using the binary versions of sagemath. Installing wouldn't work, and the "include directories are empty"

Solved it by using the command: sage -fr to force-rebuild the R package. Make sure you have all the build dependencies for libpng, libjpeg, cairo, etc. installed.

Then I could use install.packages("...") from sage -R, the notebook in R mode, or %r-cell mode with no issues.

Now I use a source build/updated version of sage instead.

I had these issues when first using the binary versions of sagemath. Installing wouldn't work, and the "include directories are empty"empty" message would pop up in sage -R.

Solved it by using the command: sage -fr to force-rebuild the R package. Make sure you have all the build dependencies for libpng, libjpeg, cairo, etc. installed.

Then I could use install.packages("...") from sage -R, the notebook in R mode, or %r-cell mode with no issues.

Now I use a source build/updated version of sage instead.