Rpy2 not finding package

Question

I'm using Rpy2 on windows 7 64 and having trouble loading a package:

in R:

using(mi)

in python:

from rpy2.robjects.packages import importr
mi=importr('mi')

---------------------------------------------------------------------------
RRuntimeError                             Traceback (most recent call last)
<ipython-input-30-2d393a6df544> in <module>()
----> 1 mi=importr('mi')

C:\Anaconda\lib\site-packages\rpy2\robjects\packages.pyc in importr(name, lib_loc, robject_translations, signature_translation, suppress_messages, on_conflict, data)
    397     if _package_has_namespace(rname, 
    398                               _system_file(package = rname)):
--> 399         env = _get_namespace(rname)
    400         version = _get_namespace_version(rname)[0]
    401         exported_names = set(_get_namespace_exports(rname))

RRuntimeError: Error in loadNamespace(name) : there is no package called 'm

Any suggestions?

Answer 1

I had a similar problem:

rpy2.rinterface.RRuntimeError: Error in loadNamespace(name) : there is no package called speedglm

I noticed that the issue is that rpy2 does not know the location of all R libraries. In my case, typing (in R)

.libPaths()

gave me

[1] "/home/nbarjest/R/x86_64-redhat-linux-gnu-library/3.4"
[2] "/usr/lib64/R/library"                                
[3] "/usr/share/R/library" 

While, typing (in Python 3)

import rpy2.rinterface
rpy2.rinterface.set_initoptions((b'rpy2', b'--no-save', b'--no-restore', b'--quiet'))
from rpy2.robjects.packages import importr
base = importr('base')
print(base._libPaths())

gave me only

[1] "/home/nbarjest/R/x86_64-redhat-linux-gnu-library/3.4"

I couldn't find a way to append the other two paths to base._libpath(). If you find a way to do it, please let me know. I used another workaround:

import rpy2
import rpy2.robjects as RObjects
from rpy2.robjects.packages import importr
utils = importr("utils")
d = {'print.me': 'print_dot_me', 'print_me': 'print_uscore_me'}
try:
    thatpackage = importr('speedglm', robject_translations = d, lib_loc = "/home/nbarjest/R/x86_64-redhat-linux-gnu-library/3.4")
except:
    try:
        thatpackage = importr('speedglm', robject_translations = d, lib_loc = "/usr/lib64/R/library")
    except:
        thatpackage = importr('speedglm', robject_translations = d, lib_loc = "/usr/share/R/library")

This works. I hope other people who have the same problem find this useful.

Answer 2

For me, in importr, the argument lib_loc inside it worked, putting the first path that appears in the output of .libPaths() in R, like:

importr('name package', lib_loc="/home/nbarjest/R/x86_64-redhat-linux-gnu-library/3.4"),

where the path is the path in the output example of the @Nbarjest answer.

Answer 3

In python: Check the version of R being used by rpy2

import rpy2.robjects as robjects
robjects.r['version']

Check your rpy2 library location

base = importr('base')
print(base._libPaths())

In R: Check your R library location for this version of r

.libPaths()

copy the library installed in your version of r to the folder used by rpy2.