On 21/04/10 22:30, Christian Marquardt wrote: > Hi, > > once more my apologies if I'm missing the obvious... > > The rpy2 documentation at > http://rpy.sourceforge.net/rpy2/doc-2.1/html/numpy.html#high-level-interface > states that the import of the numpy2ri module "alone is sufficient to > switch an automatic conversion of numpy objects into rpy2 objects." > Based on that, I would have expected that something like > > import numpy as np > import rpy2.robjects.numpy2ri > import rpy2.robjects as ro > > x = np.arange(-10., 10., 0.1) > > ro.globalenv["x"] = x > > works well. However, it generates the following error: > > File "numpy_1.py", line 7, in<module> > ro.globalenv["x"] = x > File "/opt/apps/lib/python2.5/site-packages/rpy2/robjects/__init__.py", > line 166, in __setitem__ > robj = conversion.py2ro(value) > File "/opt/apps/lib/python2.5/site-packages/rpy2/robjects/__init__.py", > line 143, in default_py2ro > res = default_py2ri(o) > File "/opt/apps/lib/python2.5/site-packages/rpy2/robjects/__init__.py", > line 132, in default_py2ri > raise(ValueError("Nothing can be done for the type %s at the > moment." %(type(o)))) > ValueError: Nothing can be done for the type<type 'numpy.ndarray'> at > the moment. > > It's of course straightforward to cast the numpy array explicitly with > > ro.globalenv["x"] = ro.FloatVector(x) > > but why is this necessary? Wouldn' numpy2ri.py also need an > inplementation of py2ro which makes sure that calls of > conversion.py2ro are routed through the numpy aware version of py2ri?
Yes this is a problem, particularly since the following is already working: >>> ro.conversion.py2ri(x) <Array - Python:0xa66b7cc / R:0xb016030> Thanks for the report, this is in fact leading to a more serious bug. Currently, robjects.Environment is in fact probably insensitive to any redefinition of conversion.py2ri. I filed a bug report https://bitbucket.org/lgautier/rpy2/issue/41/environment__setitem__-and-conversionpy2ri Hopefully this will be fixed for 2.1.2. Laurent > Many thanks, > > Christian. > > ------------------------------------------------------------------------------ > _______________________________________________ > rpy-list mailing list > rpy-list@lists.sourceforge.net > https://lists.sourceforge.net/lists/listinfo/rpy-list ------------------------------------------------------------------------------ _______________________________________________ rpy-list mailing list rpy-list@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/rpy-list
