I have a computer where R_LIBS_USER is not found in libPaths. This is for Windows (x64). I ran R from the command line, RGui and RStudio and I get the same results. I also ran R --vanilla and I still get the discrepancy.
The only thing I found interesting was that I also ran SET from the command line and the "R related variables" (e.g., R_HOME; R_LIBS_USER) are not there. Therefore these variables are being set when I start R. I have not been able to track where does R obtain the value for these. Aside from looking at http://stat.ethz.ch/R-manual/R-patched/library/base/html/Startup.html I am not sure I have much more information that I have found useful. Thanks R [[alternative HTML version deleted]] ______________________________________________ R-help@r-project.org mailing list -- To UNSUBSCRIBE and more, see https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code.