On 24 Oct 2014, at 12:55 , Duncan Murdoch <[email protected]> wrote:
> On 24/10/2014, 1:37 AM, Simon Urbanek wrote: >> >> On Oct 24, 2014, at 12:22 AM, Emma Sherratt <[email protected]> wrote: >> >>> Dear Mac R community, >>> >>> I wonder if anyone else has come across this issue. After installing the >>> new Mac OS10.10 Yosemite, I am now having a strange problem. >>> >>> I'm trying to use movie3d and run similar functions based on this I have >>> written myself. >>> >>> Specifically, when I run >>> >>>> system("convert --version") >>> sh: convert: command not found >>> >>> yet, it is not a path issue. >>>> Sys.getenv("PATH") >>> [1] >>> "/usr/bin:/bin:/usr/sbin:/sbin:/usr/local/bin:/opt/X11/bin:/usr/local/git/bin: >>> */opt/ImageMagick/bin*:/usr/texbin" >>> >> >> It is, because Yosemite ignores PATH for processes started from a GUI >> application. You will see if you run >> system("echo $PATH") >> >> You have to use full paths in Yosemite for anything that is not on the >> "sanctioned" PATH -- or use R from the shell. > > What is the best way to find the full path to a command there, since > Sys.which() sees the same PATH as system() does? > > Alternatively, how do you modify the PATH that system() sees? > > Duncan Murdoch > > _______________________________________________ > R-SIG-Mac mailing list > [email protected] > https://stat.ethz.ch/mailman/listinfo/r-sig-mac Disclaimer: I'm at the office computer right now, still on Mavericks. In my limited experimentation, I found that you can pass the PATH explicitly as in path <- Sys.getenv("PATH") cmd <- paste("PATH=", path, "; which pdflatex") system(cmd) I don't recall needing to export PATH, and there could be complications with the shell flavour (sh, ash, bash, zsh, ...). Also, I think it wants to be two commands with the intervening semicolon, but it might work without it. Anyways, give it a try. -- Peter Dalgaard, Professor, Center for Statistics, Copenhagen Business School Solbjerg Plads 3, 2000 Frederiksberg, Denmark Phone: (+45)38153501 Email: [email protected] Priv: [email protected] _______________________________________________ R-SIG-Mac mailing list [email protected] https://stat.ethz.ch/mailman/listinfo/r-sig-mac
