I'm very new to rpy2, as well as R.
I basically have a R script, script.R, which contains functions, such as rfunc(folder). It is located in the same directory as my python script. I want to call it from Python, and then launch one of its functions. I do not need any output from this R function. I know it must be very basic, but I cannot find examples of R script-calling python codes. What I am currently doing, in Python:
import rpy2.robjects as robjects
def pyFunction(folder):
#do python stuff
r=robjects.r
r[r.source("script.R")]
r["rfunc(folder)"]
#do python stuff
pyFunction(folder)
I am getting an error on the line with source:
r[r.source("script.R")]
File "/usr/lib/python2.7/dist-packages/rpy2/robjects/__init__.py", line 226, in __getitem__
res = _globalenv.get(item)
TypeError: argument 1 must be string, not ListVector
I quite do not understand how the argument I give it is not a string, and I guess the same problem will then happen on the next line, with folder being a python string, and not a R thingie.
So, how can I properly call my script?
source
is a r
function, which runs a r
source file. Therefore in rpy2
, we have two ways to call it, either:
import rpy2.robjects as robjects
r = robjects.r
r['source']('script.R')
or
import rpy2.robjects as robjects
r = robjects.r
r.source('script.R')
r[r.source("script.R")]
is a wrong way to do it.
Same idea may apply to the next line.