This is the source tree or distribution for the rpy2 package.
pip should work out of the box:
pip install rpy2
The package is known to compile on Linux, MacOSX, and Windows
(provided that developper tools are installed, and you are ready
figure out how by yourself).
Alternatively, there is a Docker image available to try rpy2 out
without concerns about the installation process.
To run the ipython console:
docker run -it --rm -p 8888:8888 rpy2/jupyter:2.9.x ipython
To run jupypter notebook on port 8888:
docker run --rm -p 8888:8888 rpy2/jupyter:2.9.x
More information about Docker images can be found in the
In case you find yourself with this source without any idea
of what it takes to compile anything on your platform, try first
python setup.py install
If this fails, consider looking for pre-compiled binaries (they are available on Linux Red Hat,
CentOS, Debian, Ubuntu, etc...) or using the matching Docker container.
python setup.py develop will appear to work, but will result in an
installation from the
rpy directory here. The namespaces will be
incorrect, so don't do that!
Documentation is available either in the source tree (to be built),
or online (on readthedocs).
The testing machinery uses the new unittest functionality, requiring python 2.7+
(or potentially the backported unittest2 library for older python, but this is
not supported). The test suite can be run (once rpy2 is installed) as follows:
pytest --pyargs rpy2
Individual tests can be run as follows:
pytest --pyargs rpy2.robjects.tests.testVector
The former recommended way to run tests (
python -m rpy2.tests) may still work.
RPy2 can be used under the terms of the GNU
General Public License Version 2 or later (see the file
gpl-2.0.txt). This is the very same license R itself is released under.
I think that this is because R is installed at the system level (/usr/local) and the default user for the container (not an admin) cannot write into the default install directory. Check the parameter "lib" for the function "install.packages" in the R documentation.
Hi, when i try to use this version of docker to install library:
import rpy2.robjects as robjects
from rpy2.robjects.packages import importr
package_name = "xgboost"
it says: /usr/local/lib/python3.5/dist-packages/rpy2/rinterface/init.py:186: RRuntimeWarning: Error in (function (pkgs, lib, repos = getOption("repos"), contriburl = contrib.url(repos, :
unable to create 'NA'
i've tried with several library, but they all show "unable to create 'NA'"
Can you help on this? thanks :)