R build package12/20/2023 Most contemporary Linux distributions have a new enough compiler however, CentOS 7 is a notable exception, as it ships with gcc 4.8. For gcc, this generally means version 7 or newer. There is a clear error with phyloseq and igraph.As of version 10.0.0, arrow requires a C++17 compiler to build. Installation of package ‘igraph’ had non-zero exit status noĬonfigure: error: in /private/var/folders/xk/rq79vvxx0hzc6vvt3g6z9sh80000gr/T/RtmppDMeHD/R.INSTALL26bf618aff8d/igraph:Ĭonfigure: error: C compiler cannot create executables Installing package into ‘/Users/Library/R/x86_64/4.1/library’Ĭhecking whether the C compiler works. Next, I have tried to download igraph independently When I went to library(phyloseq) now I am getting this:Įrror: package or namespace load failed for ‘phyloseq’ in loadNamespace(j <- i], c(lib.loc. Installation of package ‘igraph’ had non-zero exit status. Path: /Library/Frameworks/R.framework/Versions/4.1/Resources/library Installation paths not writeable, unable to update packages ‘/private/var/folders/xk/rq79vvxx0hzc6vvt3g6z9sh80000gr/T/Rtmpm1Bzuq/downloaded_packages’ There is a binary version available but the source version is later:ĭo you want to install from sources the package which needs compilation? (Yes/no/cancel) YesĪt the end of all this installation standard out lines, I get the following:ĮRROR: configuration failed for package ‘igraph’ If (!requireNamespace("BiocManager", quietly = TRUE)) install.packages("BiocManager") BiocManager::install("phyloseq") Next, I ran the following command, to install phyloseq If (!requireNamespace("BiocManager", quietly = TRUE)) install.packages("BiocManager") BiocManager::install(version = "3.13") I navigated to the Installing the phyloseq package website which suggested I run the following code:Įrror: With R version 3.5 or greater, install Bioconductor packages using BiocManager see I tried to install phyloseq package that I was using, without issue before updating. I have just updated my MacOS, R, and R studio.
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