It might not be an answer to your exact problem, but it appears to work
with rpy2 (packaged for opensuse).
>>> from ryp2.robjects import r
>>> r.library("affy")
rpy2-2.1.x-dev is introducing a Python package-like approach:
>>> from rpy2.robjects.packages import importr
>>> affy = importr("affy") # import the affy package
>>> tuple(affy.bgcorrect_methods())
('mas', 'none', 'rma')
L.
Paul Geeleher wrote:
> Hi guys, I'm getting this error below when I try to load the
> bioconductor affy library through rpy. It loads find in R though. Its a
> 64 bit opensuse system. Any ideas would be greatly appreciated! Paul.
>
> >>> from rpy import r
> >>> r('library("affy")')
> Loading required package: Biobase
>
> Welcome to Bioconductor
>
> Vignettes contain introductory material. To view, type
> 'openVignette()'. To cite Bioconductor, see
> 'citation("Biobase")' and for packages 'citation(pkgname)'.
>
> Traceback (most recent call last):
> File "<stdin>", line 1, in <module>
> File "/usr/local/lib/python2.5/site-packages/rpy.py", line 322, in
> __call__
> return self.eval(self.parse(text=s))
> rpy.RPy_RException: Error: package/namespace load failed for 'affy'
>
>
> --------------------------------------------
> sessionInfo()
> R version 2.9.0 (2009-04-17)
> x86_64-unknown-linux-gnu
>
> locale:
> LC_CTYPE=en_GB.UTF-8;LC_NUMERIC=C;LC_TIME=en_GB.UTF-8;LC_COLLATE=en_GB.UTF-8;LC_MONETARY=C;LC_MESSAGES=en_GB.UTF-8;LC_PAPER=en_GB.UTF-8;LC_NAME=C;LC_ADDRESS=C;LC_TELEPHONE=C;LC_MEASUREMENT=en_GB.UTF-8;LC_IDENTIFICATION=C
>
> attached base packages:
> [1] stats graphics grDevices utils datasets methods base
> --------------------------------------------
>
> --
> Paul Geeleher
> School of Mathematics, Statistics and Applied Mathematics
> National University of Ireland
> Galway
> Ireland
>
>
> ------------------------------------------------------------------------
>
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