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.
Cheers,
Simon
> This shows clearly that the imagemagick path is listed (and so isn't the
> same as the problem in this previous discussion:
> http://r.789695.n4.nabble.com/convert-command-not-found-in-movie3d-rgl-package-in-Mac-OS-X-td4320734.html
> )
>
> Also, in Terminal,
>
> echo $PATH
>
> /usr/local/bin:/usr/local/bin:/usr/bin:/bin:/usr/sbin:/sbin:/opt/X11/bin:/usr/local/git/bin:
> */opt/ImageMagick/bin*:/usr/texbin
>
> The only way I have been able to get it to work is:
>
> system("/opt/ImageMagick/bin/convert --version")
>
> [1] "Version: ImageMagick 6.8.9-8 Q16 x86_64 2014-10-08
> http://www.imagemagick.org";
>
> [2] "Copyright: Copyright (C) 1999-2014 ImageMagick Studio LLC"
>
>
> [3] "Features: DPC OpenCL"
>
>
> [4] "Delegates: bzlib fftw jng jpeg lcms lzma png tiff webp xml zlib"
>
>
> [5] ""
>
>
> However, this workaround does not work for me using movie3d{rgl}
>
> Any ideas most appreciated
>
>
> Emma
>
> ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
>
> Emma Sherratt, PhD.
>
> Lecturer in Zoology,
> Zoology Division, School of Environmental and Rural Science,
> Room L118 Bldg C02,
> University of New England,
> Armidale, NSW, Australia, 2351
> Tel: +61 2 6773 5038
> email: [email protected]
>
> Caecilians are legless amphibians...
>
> * __
> (\ .-. .-. /_")
> \\_//^\\_//^\\_//
> `"` `"` `"`*
>
> learn more about them here: www.emmasherratt.com/caecilians
>
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>
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