Question

I am trying to recreate the demo examples on the IPython Notebook rmagic page. I am getting partial success with a specific error that comes up every time I try to use %Rpush or try to exchange data between R and numpy via the Rpush and Rpull mechanisms (which push/pull data between R and the Py namespaces )

%%R cell magic works reasonably well – I am able to define R vecs X and Y and do a print (lm(X~Y)) which successfully prints output in an IPython Notebook. This also works identically on the qtconsole, and the terminal.

Now if I do a plot(X,Y) inside the cell – I successfully get a plot.
If I start a new Notebook line and try plot(X,Y) I get the following error

 [....]
 TypeError: coercing to Unicode: need string or buffer, dict found

full stack trace at http://pastebin.com/Pb56Tmgc

a) Why is this successful inside a cell but not working in a line?
b) Any suggestions?

(Env: Python 2.7 (Anaconda 2.7.3 CE) R 2.15 rpy2 2.3 MacOSX 10.7.5 on a 2010 MBP 15″

http://www.soundfrost.org/ >youtube to mp3

Answer 1

This is a bug – the R magic was getting the local namespace as the argument where it was expecting the cell.

Digging into IPython.core.interactiveshell with git blame, it looks like it was fixed as part of pull request #2130 a few months ago.