I'm am trying to import some python modules from my virtualenv that I created, within a Rmarkdown document. I am new to python, so I'll just walk through the steps of my setup.
(1) I created a new virtualevn called r-reticulate in the default root location ~/.virtualenvs using
virtualenv -p /usr/bin/python3 r-reticulate
(2) After activating the env, I installed a few modules using pip. The follwing is a list of the installed packages:
$ pip list
Package Version
--------------- -------
cycler 0.10.0
kiwisolver 1.0.1
matplotlib 3.0.2
numpy 1.16.1
pandas 0.24.1
pip 19.0.3
pkg-resources 0.0.0
pyparsing 2.3.1
python-dateutil 2.8.0
pytz 2018.9
setuptools 40.8.0
six 1.12.0
virtualenv 16.4.1
wheel 0.33.1
(3) Now to my R code. I have 2 only code chunks. The first:
```{r}
library(reticulate)
use_virtualenv(virtualenv = "r-reticulate")
```
and the second:
```{python}
import pandas as pd
import numpy as np
```
The first code chuck runs without error, but the second one returns:
ImportError: No module named matplotlib
I've verified that the r-reticulate environment does work, by activating it and importing thes modules through the terminal.
Sesssion Info
R version 3.5.1 (2018-07-02)
Platform: x86_64-pc-linux-gnu (64-bit)
Running under: Ubuntu 18.04.1 LTS
Matrix products: default
BLAS: /usr/lib/x86_64-linux-gnu/atlas/libblas.so.3.10.3
LAPACK: /usr/lib/x86_64-linux-gnu/atlas/liblapack.so.3.10.3
attached base packages:
[1] stats graphics grDevices utils datasets methods base
other attached packages:
[1] reticulate_1.10 ggplot2_3.1.0
