Call R from Python

colin@mikrojenkins:~$ mkdir mikroR
colin@mikrojenkins:~$ cd mikroR
colin@mikrojenkins:~/mikroR$ virtualenv .
New python executable in ./bin/python
Installing setuptools, pip…done.
colin@mikrojenkins:~/mikroR$ . bin/activate
(mikroR)colin@mikrojenkins:~/mikroR$ pip install rpy2
error: Setup script exited with Error: Tried to guess R’s HOME but no R command in the PATH.

(mikroR)colin@mikrojenkins:~/mikroR$ sudo apt-get update
[sudo] password for colin:
(mikroR)colin@mikrojenkins:~/mikroR$ sudo apt-get install r-base -y
(mikroR)colin@mikrojenkins:~/mikroR$ pip install rpy2
Successfully installed rpy2

(mikroR)colin@mikrojenkins:~/mikroR$ cat
import rpy2.robjects as robjects

rplot = robjects.r[‘plot’]
rpng = robjects.r[‘png’]

vol = robjects.r[‘volcano’]
v = robjects.FloatVector([1.1, 2.2, 3.3, 4.4, 5.5, 6.6])
m = robjects.r[‘matrix’](v, nrow = 2)

rpng(“Routput/m.png”, width=600, height=589)

rpng(“Routput/vol.png”, width=600, height=589)

(mikroR)colin@mikrojenkins:~/mikroR$ ./
[,1] [,2] [,3]
[1,] 1.1 3.3 5.5
[2,] 2.2 4.4 6.6

colin@mikrojenkins:~/mikroR$ ls Routput/
m.png vol.png

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