Hi Patrick, thank you for your assistance.
Here is my SessionInfo()

> sessionInfo()
R version 2.8.1 (2008-12-22)
i386-apple-darwin8.11.1

locale:
C

attached base packages:
[1] splines   tools     stats     graphics  grDevices utils
[7] datasets  methods   base

other attached packages:
[1] survival_2.34-1 Biobase_2.2.2

loaded via a namespace (and not attached):
[1] AnnotationDbi_1.4.3 DBI_0.2-4           RSQLite_0.7-1
[4] annotate_1.20.1

====

If I install genefilter from BioC, right from the R console, I am getting
the same results as I indicated in my earlier message. Perhaps you mean that
I should download the sources and re-compile? Mmm I used to do these things
in Linux, I need to take some dust off my neurons if I need to get this done
on a Mac.

Massimo



On Wed, Apr 15, 2009 at 6:27 PM, Patrick Aboyoun <paboyoun@fhcrc.org> wrote:

> Massimo,
> The problem is in the version of the genefilter Mac OS X 10.5 (Leopard)
> binary package you are using. I just downloaded genefilter version 1.22 for
> BioC 2.3 from bioconductor.org and don't see the dynamic linking to
> libgfortran that is suggested by your error message:
>
> sandbox$ otool -L genefilter/libs/i386/genefilter.so
> genefilter/libs/i386/genefilter.so:
>   genefilter.so (compatibility version 0.0.0, current version 0.0.0)
>   /Library/Frameworks/R.framework/Versions/2.8/Resources/lib/libR.dylib
> (compatibility version 2.8.0, current version 2.8.0)
>
> /System/Library/Frameworks/CoreFoundation.framework/Versions/A/CoreFoundation
> (compatibility version 150.0.0, current version 476.15.0)
>   /usr/lib/libstdc++.6.dylib (compatibility version 7.0.0, current version
> 7.4.0)
>   /usr/lib/libgcc_s.1.dylib (compatibility version 1.0.0, current version
> 1.0.0)
>   /usr/lib/libSystem.B.dylib (compatibility version 1.0.0, current version
> 111.1.1)
>
> Try to reinstall genefilter using biocLite("genefilter") and let me know if
> the problem persists. Perhaps it is with a different library. Include your
> sessionInfo() in your response so I can help troubleshoot any problems that
> arise.
>
>
> Patrick
>
>
>
> Massimo Pinto wrote:
>
>> Greetings BioC list readers,
>>
>> on a Mac OSX 10.5.6 with R 2.8.1 I have successfully installed a series of
>> packages by typing the following code on the R Console.
>>
>>
>>
>>>    source("http://bioconductor.org/biocLite.R")
>>>    biocLite()
>>>
>>>
>>
>> [...]
>>
>> however, this is what I am getting when I try to load genefilter, which is
>> required by the package Agi4x44PreProcess
>>
>>
>>
>>> library(genefilter)
>>>
>>>
>> Loading required package: Biobase
>> Loading required package: tools
>>
>> Welcome to Bioconductor
>>
>>  Vignettes contain introductory material. To view, type
>>  'openVignette()'. To cite Bioconductor, see
>>  'citation("Biobase")' and for packages 'citation(pkgname)'.
>>
>> Loading required package: survival
>> Loading required package: splines
>> Error in dyn.load(file, DLLpath = DLLpath, ...) :
>>  unable to load shared library
>>
>> '/Library/Frameworks/R.framework/Resources/library/genefilter/libs/i386/genefilter.so':
>>
>>  dlopen(/Library/Frameworks/R.framework/Resources/library/genefilter/libs/i386/genefilter.so,
>> 6): Library not loaded: /usr/local/lib/libgfortran.2.dylib
>>  Referenced from:
>>
>> /Library/Frameworks/R.framework/Resources/library/genefilter/libs/i386/genefilter.so
>>  Reason: image not found
>> Error: package/namespace load failed for 'genefilter'
>>
>> There is no /Library/Frameworks/ directory on my disk. Looks like I have
>> got
>> a messy installation. Does this look familiar to any of you?
>> Yours,
>> Massimo
>>
>>
>>
>
>


-- 
Massimo Pinto
Post Doctoral Research Fellow
Enrico Fermi Centre and Italian Public Health Research Institute (ISS), Rome
http://claimid.com/massimopinto

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