问题
I want to run a piece of R code with %%R in my python3-notebook. It works, but the problem is that the R version of the notebook is the 3.6.1, while the one in my RStudio is the 4.0.1. In fact when I run R.home() the paths are different. I tried to change the version using:
os.environ['R_HOME'] = '/Library/Frameworks/R.framework/Resources'
%load_ext rpy2.ipython
but when I call it I have a lot of errors:
/Users/guglielmo/opt/anaconda3/lib/python3.7/site-packages/rpy2/rinterface/__init__.py:146: RRuntimeWarning: Error: package or namespace load failed for ‘methods’ in library.dynam(lib, package, package.lib):
shared object ‘methods.dylib’ not found
warnings.warn(x, RRuntimeWarning)
/Users/guglielmo/opt/anaconda3/lib/python3.7/site-packages/rpy2/rinterface/__init__.py:146: RRuntimeWarning: Error: package or namespace load failed for ‘utils’ in library.dynam(lib, package, package.lib):
shared object ‘utils.dylib’ not found
warnings.warn(x, RRuntimeWarning)
/Users/guglielmo/opt/anaconda3/lib/python3.7/site-packages/rpy2/rinterface/__init__.py:146: RRuntimeWarning: Error: package or namespace load failed for ‘grDevices’ in library.dynam(lib, package, package.lib):
shared object ‘grDevices.dylib’ not found
warnings.warn(x, RRuntimeWarning)
/Users/guglielmo/opt/anaconda3/lib/python3.7/site-packages/rpy2/rinterface/__init__.py:146: RRuntimeWarning: Error: package or namespace load failed for ‘graphics’ in library.dynam(lib, package, package.lib):
shared object ‘grDevices.dylib’ not found
warnings.warn(x, RRuntimeWarning)
/Users/guglielmo/opt/anaconda3/lib/python3.7/site-packages/rpy2/rinterface/__init__.py:146: RRuntimeWarning: Error: package or namespace load failed for ‘stats’ in library.dynam(lib, package, package.lib):
shared object ‘grDevices.dylib’ not found
warnings.warn(x, RRuntimeWarning)
/Users/guglielmo/opt/anaconda3/lib/python3.7/site-packages/rpy2/rinterface/__init__.py:146: RRuntimeWarning: Durante l'avvio -
warnings.warn(x, RRuntimeWarning)
/Users/guglielmo/opt/anaconda3/lib/python3.7/site-packages/rpy2/rinterface/__init__.py:146: RRuntimeWarning: There were 13 warnings (use warnings() to see them)
warnings.warn(x, RRuntimeWarning)
/Users/guglielmo/opt/anaconda3/lib/python3.7/site-packages/rpy2/rinterface/__init__.py:146: RRuntimeWarning:
warnings.warn(x, RRuntimeWarning)
---------------------------------------------------------------------------
LookupError Traceback (most recent call last)
<ipython-input-4-fb23c6edefe4> in <module>
----> 1 get_ipython().run_line_magic('load_ext', 'rpy2.ipython')
~/opt/anaconda3/lib/python3.7/site-packages/IPython/core/interactiveshell.py in run_line_magic(self, magic_name, line, _stack_depth)
2315 kwargs['local_ns'] = sys._getframe(stack_depth).f_locals
2316 with self.builtin_trap:
-> 2317 result = fn(*args, **kwargs)
2318 return result
2319
<decorator-gen-64> in load_ext(self, module_str)
~/opt/anaconda3/lib/python3.7/site-packages/IPython/core/magic.py in <lambda>(f, *a, **k)
185 # but it's overkill for just that one bit of state.
186 def magic_deco(arg):
--> 187 call = lambda f, *a, **k: f(*a, **k)
188
189 if callable(arg):
~/opt/anaconda3/lib/python3.7/site-packages/IPython/core/magics/extension.py in load_ext(self, module_str)
31 if not module_str:
32 raise UsageError('Missing module name.')
---> 33 res = self.shell.extension_manager.load_extension(module_str)
34
35 if res == 'already loaded':
~/opt/anaconda3/lib/python3.7/site-packages/IPython/core/extensions.py in load_extension(self, module_str)
78 if module_str not in sys.modules:
79 with prepended_to_syspath(self.ipython_extension_dir):
---> 80 mod = import_module(module_str)
81 if mod.__file__.startswith(self.ipython_extension_dir):
82 print(("Loading extensions from {dir} is deprecated. "
~/opt/anaconda3/lib/python3.7/importlib/__init__.py in import_module(name, package)
125 break
126 level += 1
--> 127 return _bootstrap._gcd_import(name[level:], package, level)
128
129
~/opt/anaconda3/lib/python3.7/importlib/_bootstrap.py in _gcd_import(name, package, level)
~/opt/anaconda3/lib/python3.7/importlib/_bootstrap.py in _find_and_load(name, import_)
~/opt/anaconda3/lib/python3.7/importlib/_bootstrap.py in _find_and_load_unlocked(name, import_)
~/opt/anaconda3/lib/python3.7/importlib/_bootstrap.py in _load_unlocked(spec)
~/opt/anaconda3/lib/python3.7/importlib/_bootstrap_external.py in exec_module(self, module)
~/opt/anaconda3/lib/python3.7/importlib/_bootstrap.py in _call_with_frames_removed(f, *args, **kwds)
~/opt/anaconda3/lib/python3.7/site-packages/rpy2/ipython/__init__.py in <module>
----> 1 from .rmagic import load_ipython_extension
~/opt/anaconda3/lib/python3.7/site-packages/rpy2/ipython/rmagic.py in <module>
52
53 import rpy2.rinterface as ri
---> 54 import rpy2.robjects as ro
55 import rpy2.robjects.packages as rpacks
56 from rpy2.robjects.conversion import (Converter,
~/opt/anaconda3/lib/python3.7/site-packages/rpy2/robjects/__init__.py in <module>
17 import rpy2.rlike.container as rlc
18
---> 19 from rpy2.robjects.robject import RObjectMixin, RObject
20 from rpy2.robjects.vectors import (BoolVector,
21 IntVector,
~/opt/anaconda3/lib/python3.7/site-packages/rpy2/robjects/robject.py in <module>
50
51
---> 52 class RObjectMixin(object):
53 """ Class to provide methods common to all RObject instances. """
54
~/opt/anaconda3/lib/python3.7/site-packages/rpy2/robjects/robject.py in RObjectMixin()
64 __rclass = rpy2.rinterface.baseenv.get("class")
65 __rclass_set = rpy2.rinterface.baseenv.get("class<-")
---> 66 __show = rpy2.rinterface.baseenv.get("show")
67
68 __slots = None
LookupError: 'show' not found
How can I solve the problem? I can compute a workaround installing the packages on R terminal, but also here I have different errors.
Thanks in advance
来源：https://stackoverflow.com/questions/65458168/change-r-version-when-using-rpy2-package-in-jupyter-notebook