如何在Ubuntu上安装和使用rpy2

Question

I am trying to use Python to call R through rpy2. I am working on Ubuntu 15.10. I have installed Python 3.5.1 as part of Anaconda 2.4.1 (64bit), R and rpy2 version 2.7.6. When I tried $ python -m 'rpy2.tests' on the terminal, I am getting the following error:

Traceback (most recent call last):
  File "/home/thirsty/anaconda3/lib/python3.5/runpy.py", line 170, in    _run_module_as_main
    "__main__", mod_spec)
  File "/home/thirsty/anaconda3/lib/python3.5/runpy.py", line 85, in _run_code
    exec(code, run_globals)
  File "/home/thirsty/anaconda3/lib/python3.5/site-packages/rpy2/tests.py",   line 23, in <module>
    import rpy2.tests_rpy_classic
  File "/home/thirsty/anaconda3/lib/python3.5/site-packages/rpy2/tests_rpy_classic.py", line 3, in <module>
    import rpy2.rpy_classic as rpy
  File "/home/thirsty/anaconda3/lib/python3.5/site-packages/rpy2/rpy_classic.py", line 5, in <module>
    import rpy2.rinterface as ri
  File "/home/thirsty/anaconda3/lib/python3.5/site-packages/rpy2/rinterface/__init__.py", line 99, in <module>
    from rpy2.rinterface._rinterface import *
ImportError: /home/thirsty/anaconda3/bin/../lib/libreadline.so.6: undefined symbol: PC

Answer 1

I have resolved the issue. The versions of python, rpy2 are fine. Probably the command $ python -m 'rpy2.tests' may not be right way of testing rpy2. After starting python shell, when I typed import rpy2.robjects as robjects it worked without any errors and I was able to read files using R.

Answer 2

My server is not Ubuntu, but CentOS release 6.6 (Final). I solved this problem with this way, I think you can find corresponding file in Ubuntu.

cp /lib64/libreadline.so.6 ~/anaconda3/lib/libreadline.so.6

Done. Good luck.

But the way, if you can not install rpy2 and system tell you you need install Cython, then

pip uninstall Cython
pip install Cython

Good luck Again

Again, don't install Anaconda2 and Anaconda3 in your server at the same time, just use any one of them and then change the environment.