Installed R and rpy2 manually
Installation is successful but getting the above mentioned error. Please help me out?
Outputs of some useful commands:
>>> import rpy2
>>> rpy2.__path__
['/home/ashish/miniconda2/lib/python2.7/site-packages/rpy2-2.8.2-py2.7-linux-x86_64.egg/rpy2']
>>> import rpy2.robjects
cannot find system Renviron
/home/ashish/miniconda2/lib/python2.7/site-packages/rpy2-2.8.2-py2.7-linux- x86_64.egg/rpy2/rinterface/__init__.py:185: RRuntimeWarning: Fatal error: unable to open the base package
warnings.warn(x, RRuntimeWarning)
Segmentation fault (core dumped)
Thanks in advance..
If you install rpy2 via conda, and also have a system installation of R on the same machine (eg with RStudio), the system's R installation will be used. Since this R version doesn't match the one that rpy2 needs, segmentation faults occur.
1) remove any existing system installations of R ( see here ). Verify that you don't have any installations of R:
$>which R
R not found
2) define R_HOME
env variable, either in your .rc file:
export R_HOME=/Users/<your user>/anaconda3/envs/<env name>/lib/R
or dynamically in the python project:
import os
os.environ['R_HOME'] = '/Users/<your user>/anaconda3/envs/<env name>/lib/R'
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