[R-SIG-Mac] X11 missing? ... was Re: [R] rgl persp3d bounding box color problem.

[Kasper Daniel Hansen]

Regarding PATH and R.app. It is a well-known issue on OS X that R.app  
does not inherit the environment variables set in the shell (for  
example in ~/.profile or ~/.bashrc).

For example, it is complete standard that you get different output from
   # echo $PATH
and
   R> Sys.getenv("PATH")

The easiest way to fix this is to set the environment variable using  
the ~/.Rprofile and set it for example by
   Sys.setenv(PATH = "SOMETHING")
It can also be fixed by editing environment.plist (do a Google search  
for instructions).

Kasper

On Mar 3, 2009, at 20:14 , Duncan Murdoch wrote:

> On 03/03/2009 6:40 PM, Rob Goedman wrote:
>> David,
>> I did notice in your log.txt file the following message:
>> 	ld warning: in /usr/local/lib/libfreetype.dylib, missing required   
>> architecture x86_64 in file
>> It seems a bit far fetched for the missing symbol to come from  
>> that  library though (but this is a
>> JavaScripter/pythoneer talking :-).
>
> I think it probably did -- the FT symbols are FreeType, used by rgl  
> to draw nice fonts.
>
> But I don't know how to fix this, other than configuring without  
> Freetype (and so without nice fonts).
>
> Duncan Murdoch
>
>> As I normally work on R-2.9, I just went back to R-2.8.1 and tried  
>> the  terminal procedure.
>> Got the rgl examples running without problems. So that is not the   
>> cause of the error message either.
>> I also noticed you are using the latest rgl from R-Forge (83-751),   
>> while I was using 83-3.
>> Both versions work on my system.
>> If someone could help out where _FT_Attach_File comes from ...
>> Rob
>> On Mar 3, 2009, at 2:48 PM, David Winsemius wrote:
>>> Tried that method:
>>>
>>> The compilation proceeded without error and was reported:
>>> <snip quite a bit of material attached as rgl-compile.log>
>>> ** building package indices ...
>>> * DONE (rgl)
>>>
>>>
>>> However, in R refreshing the Package Manager and attempting to  
>>> load  rgl fails to load with this error report:
>>>
>>> Error in dyn.load(file, DLLpath = DLLpath, ...) :
>>> unable to load shared library '/Users/davidwinsemius/Library/R/ 
>>> 2.8/ library/rgl/libs/x86_64/rgl.so':
>>> dlopen(/Users/davidwinsemius/Library/R/2.8/library/rgl/libs/ 
>>> x86_64/ rgl.so, 6): Symbol not found: _FT_Attach_File
>>> Referenced from: /Users/davidwinsemius/Library/R/2.8/library/rgl/  
>>> libs/x86_64/rgl.so
>>> Expected in: dynamic lookup
>>>
>>> Error : .onLoad failed in 'loadNamespace' for 'rgl'
>>> Error: package/namespace load failed for 'rgl'
>>> <rgl-compile-log.txt>
>>>
>>> -- thanks for all the eyeballs and ideas
>>>
>>> David Winsemius
>>>
>>>
>>> On Mar 3, 2009, at 5:16 PM, Rob Goedman wrote:
>>>
>>>> David,
>>>>
>>>> On my system libpng-config and xmkmf are in /usr/X11/bin, as on   
>>>> your system.
>>>> Adding /usr/X11/bin to my path did not help. I think /usr/X11R6  
>>>> is  just a link back to /usr/X11.
>>>>
>>>> Did you try the terminal suggestion?
>>>>
>>>> Download rgl_0.83-3.tar.gz from CRAN, then in a terminal
>>>>
>>>> Robs-Intel:~ rob$ pwd
>>>> /Users/rob
>>>>
>>>> Robs-Intel:~ rob$ cd Downloads/					# To wherever the   
>>>> rgl.....tar.gz got stored
>>>>
>>>> Robs-Intel:Downloads rob$ ls
>>>> Cappuccino_Developer_Tools.pkg
>>>> Changes.app
>>>> Fluid_0.9.6.zip
>>>> iphone_sdk_for_iphone_os_2.2.19m2621afinal.dmg
>>>> rgl_0.83-3.tar.gz
>>>> ...
>>>>
>>>> Robs-Intel:Downloads rob$ R_ARCH=/x86_64 R CMD INSTALL  -- 
>>>> configure- args='--disable-carbon' rgl_0.83-3.tar.gz
>>>> * Installing to library ‘/Library/Frameworks/R.framework/ 
>>>> Resources/ library’
>>>> * Installing *source* package ‘rgl’ ...
>>>> checking for gcc... gcc-4.2 -arch x86_64 -std=gnu99
>>>> checking for C compiler default output file name... a.out
>>>> checking whether the C compiler works... yes
>>>> checking whether we are cross compiling... no
>>>> ...
>>>>
>>>> I know, it is not the ultimate solution, but it might help to  
>>>> know  this works on your system.
>>>>
>>>> Rob
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