error message using R 4.3.1

[tolitsmagadia]

Third command line in Chapter 1 gives the following:

install_sand_packages()
Error: With R version 3.5 or greater, install Bioconductor packages using BiocManager; see https://bioconductor.org/install

I have installed latest version of BiocManager but don't know which Bioconductor packages are needed to run the rest of the chapters although those that depend on igraph work perfectly fine.

[gaborcsardi]

Unfortunately that function does not work anyt more. You can install dependencies like this:

pkgs <- strsplit(packageDescription("sand")$Suggests, "[, \n]+")[[1]]
# networkTomography was archived and does not build on newer R
pkgs <- setdiff(pkgs, "networkTomography")
pak::pkg_install(pkgs)

[tolitsmagadia]

Installing...

ℹ Building GenomeInfoDbData 1.2.10
Installing...

Error:
! error in pak subprocess
Caused by error:
! Could not find tools necessary to compile a package
Call pkgbuild::check_build_tools(debug = TRUE) to diagnose the problem.
Type .Last.error to see the more details.

[gaborcsardi]

Yes, to build R packages from source you need to install Rtools on Windows, and the Xcode command line tools on macOS.