CODEWITHSUNDEEP
pythonr
user460213
user460213

Reputation: 45

Executing R script with Python via subprocess.call

I have a R script which works fine on its own but I need it to be a part of python script. So, when I run the python script the R script be executed automatically. I use the below command; there is no error but the R script output files are not created. 

import subprocess

retcode = subprocess.call("C:/Program Files/R/R-3.2.2/bin/Rscript --vanilla T:/2012.R", shell=True)

Thank you so much in advance.

Upvotes: 2

Views: 10231

Answers (1)

Parfait
Parfait

Reputation: 107577

Simply place your string command in brackets and break string into separate components as the first parameter of function expects a list of arguments, per the doc:

subprocess.call(args, *, stdin=None, stdout=None, stderr=None, shell=False)

import subprocess

retcode = subprocess.call(['C:/Program Files/R/R-3.2.2/bin/Rscript', '--vanilla', 
                           'T:/2012.R'], shell=True)

Alternatively, break it up into multiple strings:

command = 'C:/Program Files/R/R-3.2.2/bin/Rscript'
arg = '--vanilla'
path2script = 'T:/2012.R'

retcode = subprocess.call([command, arg, path2script], shell=True)

Upvotes: 5

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