Hi all,
After attempting to upgrade R, I now for the life of me cannot get rpy2 to
interface. Installation of R and rpy2 do proceed (though some warnings on
compile there, see below), but then this happens when importing `robjects`:
05:19:21 ~$ python -c "import rpy2.robjects"
Traceback (most recent call last):
File "<string>", line 1, in <module>
File
"/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/rpy2/robjects/__init__.py",
line 15, in <module>
import rpy2.rinterface as rinterface
File
"/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/rpy2/rinterface/__init__.py",
line 101, in <module>
from rpy2.rinterface._rinterface import *
ImportError:
dlopen(/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/rpy2/rinterface/_rinterface.so,
2): Symbol not found: _R_BaseEnv
Referenced from:
/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/rpy2/rinterface/_rinterface.so
Expected in: flat namespace
in
/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/rpy2/rinterface/_rinterface.so
I am running the following versions:
- R 3.02 (Platform: x86_64-apple-darwin10.8.0 (64-bit)) downloaded from CRAN,
though I have tried various compile-from-source options.
- Python 2.7.3 (Enthought)
- Mac OS X 10.6.8 with gcc 4.2.1
I've tried a couple different releases of rpy2, all have the same effect.
I've also tried the hint in the docs:
env ARCHFLAGS="-arch i386 -arch x86_64" python setup.py build install
... but this has no different effects.
However, I can get a different error I specify "-arch x86_64" ONLY:
05:30:13 ~$ python -c "import rpy2.robjects"
Traceback (most recent call last):
File "<string>", line 1, in <module>
File
"/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/rpy2/robjects/__init__.py",
line 15, in <module>
import rpy2.rinterface as rinterface
File
"/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/rpy2/rinterface/__init__.py",
line 101, in <module>
from rpy2.rinterface._rinterface import *
ImportError: dynamic module does not define init function (init_rinterface)
>From the installation_log.txt (attached), a snippet containing warnings
>potentially interesting:
/Library/Frameworks/Python.framework/Versions/7.3/include/python2.7/pymacconfig.h:56:1:
warning: this is the location of the previous definition
ld: warning: in /Library/Frameworks/R.framework/Resources/lib/libR.dylib, file
was built for unsupported file format which is not the architecture being
linked (i386)
/Library/Frameworks/Python.framework/Versions/7.3/include/python2.7/pymacconfig.h:56:1:
warning: this is the location of the previous definition
ld: warning: in /Library/Frameworks/R.framework/Resources/lib/libR.dylib, file
was built for unsupported file format which is not the architecture being
linked (i386)
Thank you VERY much for any help,
Nik
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