I loved the R magic in ipython notebook. I had to switch to a new server and heard that a huge headache can be taken out by installing everything through anaconda. However, R magic doesn't seem to work, which is half the reason I use ipython notebook.
After installing anaconda, I open a notebook and simply type the following.
%load_ext rmagic
%%R
print("hi")
This produces a Runtime error I can't get to the bottom of:
--------------------------------------------------------------------------
RRuntimeError Traceback (most recent call last)
<ipython-input-6-89259627ca18> in <module>()
----> 1 get_ipython().run_cell_magic(u'R', u'', u'print("hi")')
/nas1/apps/anaconda/lib/python2.7/site-packages/IPython/core/interactiveshell.pyc in run_cell_magic(self, magic_name, line, cell)
2160 magic_arg_s = self.var_expand(line, stack_depth)
2161 with self.builtin_trap:
-> 2162 result = fn(magic_arg_s, cell)
2163 return result
2164
/nas1/apps/anaconda/lib/python2.7/site-packages/IPython/extensions/rmagic.pyc in R(self, line, cell, local_ns)
/nas1/apps/anaconda/lib/python2.7/site-packages/IPython/core/magic.pyc in <lambda>(f, *a, **k)
191 # but it's overkill for just that one bit of state.
192 def magic_deco(arg):
--> 193 call = lambda f, *a, **k: f(*a, **k)
194
195 if callable(arg):
/nas1/apps/anaconda/lib/python2.7/site-packages/IPython/extensions/rmagic.pyc in R(self, line, cell, local_ns)
626 return
627 finally:
--> 628 self.r('dev.off()')
629
630 # read out all the saved .png files
/nas1/apps/anaconda/lib/python2.7/site-packages/rpy2/robjects/__init__.pyc in __call__(self, string)
244 def __call__(self, string):
245 p = rinterface.parse(string)
--> 246 res = self.eval(p)
247 return res
248
/nas1/apps/anaconda/lib/python2.7/site-packages/rpy2/robjects/functions.pyc in __call__(self, *args, **kwargs)
164 v = kwargs.pop(k)
165 kwargs[r_k] = v
--> 166 return super(SignatureTranslatedFunction, self).__call__(*args, **kwargs)
167
168 pattern_link = re.compile(r'\\link\{(.+?)\}')
/nas1/apps/anaconda/lib/python2.7/site-packages/rpy2/robjects/functions.pyc in __call__(self, *args, **kwargs)
97 for k, v in kwargs.items():
98 new_kwargs[k] = conversion.py2ri(v)
---> 99 res = super(Function, self).__call__(*new_args, **new_kwargs)
100 res = conversion.ri2ro(res)
101 return res
RRuntimeError: Error in dev.off() : cannot shut down device 1 (the null device)
I restart my server to assure that the only R instance running is this one. Rpy2 works, as I can print out plots using this library, but the R magic always produces this RunTimeError.
Any help?
(I'm not sure if I should post this on SO or another exchange, but based on what answers I get, I will adapt)