calling R from python (fwd)
My immediate guess is that you do not have R compiled as a shared library, i.e. libR.so. Without this, you cannot use R within Python, but only Python within R. libR.so is where R_GlobalEnv will come from. So check for libR.so in the directory `R RHOME`/bin. If it is not there, you will have to build R from source by configuring it with ./configure --enable-R-shlib Then, re-install the RSPython package and things should work. There is a shell script in the scripts/ directory of the installed RSPython package that sets the relevant variables. Just source that into your shell (i.e. source for csh/tcsh, or . sciptName for Bash) and that should set the PYTHONLIB and LD_LIBRARY_PATH correctly. D.
Agustin Lobo wrote:
A question for a (experienced) user of the RPython package on linux. I'm trying to call R from python on a linux (Suse 7.3) box. After installing R CMD INSTALL -c RSPython_0.5-2.tar.gz I start python and do:
import sys
sys.path.append('/usr/local/lib/R/library/RSPython')
sys.path.append('/usr/local/lib/R/library/RSPython/Python')
sys.path.append('/usr/local/lib/R/library/RSPython/libs')
sys.path.append('/usr/local/lib/R/library/RSPython/man')
sys.path.append('/usr/local/lib/R/library/R/RSPython')
sys.path.append('/usr/local/lib/R/library/RSPython/R/RSPython')
sys.path.append('/usr/local/lib/R/library/RSPython/R')
sys.path.append('/usr/local/lib/R/library/RSPython/include')
sys.path.append('/usr/local/lib/R/include/R_ext')
import RS
Traceback (most recent call last):
File "<stdin>", line 1, in ?
File "/usr/local/lib/R/library/RSPython/Python/RS.py", line 1, in ?
import RSInternal
ImportError: /usr/local/lib/R/library/RSPython/libs/RSInternal.so:
undefined symbol: R_GlobalEnv
import RS
RS.call("rnorm", 10);
Traceback (most recent call last): File "<stdin>", line 1, in ? AttributeError: 'RS' module has no attribute 'call' Any idea of what am I doing wrong? Where should R_GlobalEnv be defined? Thanks Agus Dr. Agustin Lobo Instituto de Ciencias de la Tierra (CSIC) Lluis Sole Sabaris s/n 08028 Barcelona SPAIN tel 34 93409 5410 fax 34 93411 0012 alobo at ija.csic.es
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