Re: [R] Incorrect libxml2.2.dylib version on Tiger install

From: Brian Beckage <Brian.Beckage_at_uvm.edu>
Date: Tue 10 May 2005 - 00:25:53 EST

I encountered a similar problem after installing the new version of R (2.1.0) on my Mac OSX 10.3.8--I have not updated to Tiger. The error message I get is below. As Steven reported, I do not get this error when running R from within the Aqua GUI, but only at the command line (which is unfortunately how I use R). Is the solution to install the newer version of Xcode (2.0) as suggested in earlier emails?

Thanks,
Brian

Error in dyn.load(x, as.logical(local), as.logical(now)) :

        unable to load shared library
'/Library/Frameworks/R.framework/Resources/library/grDevices/libs/grDevices.so':

   dlcompat: dyld:
/Library/Frameworks/R.framework/Resources/bin/exec/R version mismatch for library: /usr/local/lib/libxml2.2.dylib (compatibility version of user: 9.0.0 greater than library's version: 8.0.0) Loading required package: grDevices
Error in dyn.load(x, as.logical(local), as.logical(now)) :

        unable to load shared library
'/Library/Frameworks/R.framework/Resources/library/grDevices/libs/grDevices.so':

   dlcompat: dyld:
/Library/Frameworks/R.framework/Resources/bin/exec/R version mismatch for library: /usr/local/lib/libxml2.2.dylib (compatibility version of user: 9.0.0 greater than library's version: 8.0.0) In addition: Warning message:
package grDevices in options("defaultPackages") was not found Error: package 'grDevices' could not be loaded

>Sorry to reply to my own post, but I have more info. This probably
>needs to come to the attention of the Mac R developers.
>
>Xcode 2.0 does not have a more recent libxml2.2.dylib.
>
>The problem only manifests itself when running R 2.1.0 from the
>command line, not within the Aqua GUI.
>
>Thanks for your patience.
>
>On May 7, 2005, at 9:30 AM, Steven Boker wrote:
>
>>Hi all,
>>
>>I have just installed OSX Server 10.4 and R comes up with the
>>incompatible libxml library message reported by Dan Kelley a few
>>messages ago. Xcode 2 does not ship with Tiger Server. I
>>installed the X-Windows code. I can report that the version of
>>libxml2.2 that is installed in this case is the version 8.0.0 dylib.
>>
>>[6]sboker@munimula:/usr/lib % ls -l libxml2.2*
>>-rwxr-xr-x 1 root wheel 1061704 Apr 15 23:44 libxml2.2.6.16.dylib*
>>-rwxr-xr-x 1 root wheel 1061804 May 6 14:15 libxml2.2.dylib*
>>
>>I'm working on getting a copy of the Xcode 2 CD. I was surprised
>>it wasn't in the 10.4 server CD set. I have a production problem
>>today, though, if anyone can help me with a copy of this library.
>>
>>Best,
>>Steve Boker
>>
>>On May 6, 2005, at 12:39 PM, Dan Kelley wrote:
>>>
>>> Error in dyn.load(x, as.logical(local), as.logical(now)) :
>>> unable to load shared library '/Library/Frameworks/
>>> R.framework/Resources/library/grDevices/libs/grDevices.so':
>>> dlopen(/Library/Frameworks/R.framework/Resources/library/grDevices/
>>> libs/grDevices.so, 6): Library not loaded: /usr/lib/libxml2.2.dylib
>>> Referenced from: /System/Library/Frameworks/AppKit.framework/
>>> Versions/C/AppKit
>>> Reason: Incompatible library version: AppKit requires version
>>> 9.0.0 or later, but libxml2.2.dylib provides version 8.0.0
>>
>>---------------------------------------------------------------------
>> Steven M. Boker 574-339-0735 (cell/page/message)
>> sboker@nd.edu 574-631-4941 (office)
>> http://www.nd.edu/~sboker/ 574-631-8883 (fax)
>> Dept. of Psychology, University of Notre Dame, Notre Dame, IN 46556
>>
>>______________________________________________
>>R-help@stat.math.ethz.ch mailing list
>>https://stat.ethz.ch/mailman/listinfo/r-help
>>PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html
>>
>---------------------------------------------------------------------
> Steven M. Boker 574-339-0735 (cell/page/message)
> sboker@nd.edu 574-631-4941 (office)
> http://www.nd.edu/~sboker/ 574-631-8883 (fax)
> Dept. of Psychology, University of Notre Dame, Notre Dame, IN 46556
>
>______________________________________________
>R-help@stat.math.ethz.ch mailing list
>https://stat.ethz.ch/mailman/listinfo/r-help
>PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html

-- 
*********************************************************************
Brian Beckage
Department of Botany
University of Vermont
Marsh Life Science Building
Burlington, VT 05405

Phone:  802 656-0197
Fax  :  802 656-0440
email:  Brian.Beckage@uvm.edu
web  :  www.uvm.edu/~bbeckage

______________________________________________
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Received on Tue May 10 00:41:26 2005

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