[R-SIG-Mac] [BioC] affy won't load

[Kasper Daniel Hansen]

Ok, I will take this over to the R-SIG-Mac list and cc Herve who is  
the build manager of Bioconductor. I suspect that something is wrong  
with the Bioconductor builds.

Synopsis: Jason is running R-2.7.0 from CRAN on an Intel macbook  
running 10.5.3. He says he has Xcode 3.0 installed. He tries to  
install the binary version of aff from Bioconductor using the normal
   biocLite("affy")
However, even though the tarball downloads and gets installed, the  
package won't load. It complains that it needs the library /usr/local/ 
lib/libintl.3.dylib (and an otool -L really confirms this), but  
apparently this files does not exists. I am a bit surprised that the  
binary version links to something in /usr/local. I have this file on  
my PPC G4 running 10.5.3. As I see it, this should work out of the box  
with the system Jason is running. Does anyone have any good ideas? My  
hunch is that something might be up with the binary builds?

Vince Carey reports that a student of his had a similar problem.

Kasper

On Jun 16, 2008, at 6:53 AM, jason smith wrote:

> Thanks Steve,
>
> Here is what I get from otool:
>
> jason-smiths-macbook:~ sjorges2002$ otool -L /Users/sjorges2002/ 
> Library/R/2.7/library/affy/libs/i386/affy.so
> /Users/sjorges2002/Library/R/2.7/library/affy/libs/i386/affy.so:
> affy.so (compatibility version 0.0.0, current version 0.0.0)
> /usr/lib/libz.1.dylib (compatibility version 1.0.0, current version  
> 1.2.3)
> 	/Library/Frameworks/R.framework/Versions/2.7/Resources/lib/ 
> libR.dylib (compatibility version 2.7.0, current version 2.7.0)
> /usr/local/lib/libintl.3.dylib (compatibility version 8.0.0, current  
> version 8.3.0)
> /usr/lib/libiconv.2.dylib (compatibility version 5.0.0, current  
> version 5.0.0)
> /usr/lib/libSystem.B.dylib (compatibility version 1.0.0, current  
> version 88.3.10)
> 	/System/Library/Frameworks/CoreFoundation.framework/Versions/A/ 
> CoreFoundation (compatibility version 150.0.0, current version  
> 368.35.0)
> /usr/local/lib/libgcc_s.1.dylib (compatibility version 1.0.0,  
> current version 1.0.0)
>
> Best
> Jason
>
> --- On Mon, 6/16/08, Steve Lianoglou  
> <mailinglist.honeypot at gmail.com> wrote:
>
>
>>
>> You're not doing it right :-)
>
>>
>> otool -L
>> /Users/sjorges2002/Library/R/2.7/library/affy/libs/i386/affy.so
>>
>> Let's see what you get from that.
>>
>> -steve
>
>
>