python in RStudio

Published onesixx on 19-04-0919-04-09

R에서 miniconda설치 후(https://onesixx.com/reticulate/),
R스크립트에서 관련 Library 불러오고, 특정 conda 가상환경및 python 위치를 지정하여 준비한다.
이후, OOO.py 로 파일을 만들면, RStudio에서 python코드를 실행할 수 있다.

myENV='sixxDL'

library(keras)
library(reticulate)
# install_keras(method="conda", tensorflow="gpu")
### create new myENV by cloning 
# ~$➜ conda create --clone r-reticulate --name sixxDL

Sys.setenv(RETICULATE_PYTHON_ENV=myENV)
Sys.setenv(RETICULATE_PYTHON=file.path("~/Library/r-miniconda/envs",myENV,"bin/python"))
use_condaenv(condaenv=myENV, required=T)

if (Sys.info()["sysname"]=="Darwin"){
	use_backend(backend=c("plaidml"))
} else {
	use_backend(backend="tensorflow") 
}
keras::k_backend()
#system("plaidbench keras mobilenet")

#py_config()

# py_install("pandas")
# py_install("matplotlib")
# py_install("scikit-learn")
#.rs.restartR()  # cmd+shift+F10

#repl_python()

from pandas import read_csv
from matplotlib import pyplot
# load dataset
dataset = read_csv('pollution.csv', header=0, index_col=0)
values = dataset.values
# specify columns to plot
groups = [0, 1, 2, 3, 5, 6, 7]
i = 1
# plot each column
pyplot.figure()
for group in groups:
	pyplot.subplot(len(groups), 1, i)
	pyplot.plot(values[:, group])
	pyplot.title(dataset.columns[group], y=0.5, loc='right')
	i += 1
pyplot.show()

> reticulate::repl_python()
Python 3.6.10 (/home/onesixx/.local/share/r-miniconda/envs/sixxDL/bin/python)
Reticulate 1.16 REPL -- A Python interpreter in R.

>>> from pandas import read_csv
>>> from matplotlib import pyplot
>>> dataset = read_csv('pollution.csv', header=0, index_col=0)
>>> dataset
          No  pollution  dew  temp  ...  wnd_spd snow  rain              daytime
1         25        129  -16  -4.0  ...     1.79    0     0  2010-01-02 00:00:00
2         26        148  -15  -4.0  ...     2.68    0     0  2010-01-02 01:00:00
3         27        159  -11  -5.0  ...     3.57    0     0  2010-01-02 02:00:00
4         28        181   -7  -5.0  ...     5.36    1     0  2010-01-02 03:00:00
5         29        138   -7  -5.0  ...     6.25    2     0  2010-01-02 04:00:00
...      ...        ...  ...   ...  ...      ...  ...   ...                  ...
43796  43820          8  -23  -2.0  ...   231.97    0     0  2014-12-31 19:00:00
43797  43821         10  -22  -3.0  ...   237.78    0     0  2014-12-31 20:00:00
43798  43822         10  -22  -3.0  ...   242.70    0     0  2014-12-31 21:00:00
43799  43823          8  -22  -4.0  ...   246.72    0     0  2014-12-31 22:00:00
43800  43824         12  -21  -3.0  ...   249.85    0     0  2014-12-31 23:00:00

특정 가상환경에 추가적인 패키지를 설치하려고 할때,
RStudio내에 Terminal이 안되는 경우가 있으며, 기존의 사용하던 Terminal을 이용하면 문제없이 설치된다.

(base) onesixx@cf1d8cf6e830:/usr/lib/R/etc$ conda activate sixxDL

(sixxDL) onesixx@cf1d8cf6e830:/usr/lib/R/etc$ conda install pandas
(sixxDL) onesixx@cf1d8cf6e830:/usr/lib/R/etc$ conda install matplotlib
(sixxDL) onesixx@cf1d8cf6e830:/usr/lib/R/etc$ conda install scikit-learn

(base) onesixx@cf1d8cf6e830:/usr/lib/R/etc$ conda info

     active environment : base
    active env location : /home/onesixx/.local/share/r-miniconda
            shell level : 1
       user config file : /home/onesixx/.condarc
 populated config files :
          conda version : 4.8.3
    conda-build version : not installed
         python version : 3.8.3.final.0
       virtual packages : __cuda=10.1
                          __glibc=2.27
       base environment : /home/onesixx/.local/share/r-miniconda  (writable)
           channel URLs : https://repo.anaconda.com/pkgs/main/linux-64
                          https://repo.anaconda.com/pkgs/main/noarch
                          https://repo.anaconda.com/pkgs/r/linux-64
                          https://repo.anaconda.com/pkgs/r/noarch
          package cache : /home/onesixx/.local/share/r-miniconda/pkgs
                          /home/onesixx/.conda/pkgs
       envs directories : /home/onesixx/.local/share/r-miniconda/envs
                          /home/onesixx/.conda/envs
               platform : linux-64
             user-agent : conda/4.8.3 requests/2.24.0 CPython/3.8.3 Linux/3.10.0-1062.18.1.el7.x86_64 ubuntu/18.04.4 glibc/2.27
                UID:GID : 1001:1001
             netrc file : None
           offline mode : False

(base) onesixx@cf1d8cf6e830:/usr/lib/R/etc$ conda env list
# conda environments:
#
base                  *  /home/onesixx/.local/share/r-miniconda
r-reticulate             /home/onesixx/.local/share/r-miniconda/envs/r-reticulate
sixxDL                   /home/onesixx/.local/share/r-miniconda/envs/sixxDL

(base) onesixx@cf1d8cf6e830:/usr/lib/R/etc$ conda activate sixxDL
(sixxDL) onesixx@cf1d8cf6e830:/usr/lib/R/etc$ conda list
# packages in environment at /home/onesixx/.local/share/r-miniconda/envs/sixxDL:
#
# Name                    Version                   Build  Channel
_libgcc_mutex             0.1                 conda_forge    conda-forge
_openmp_mutex             4.5                       1_gnu    conda-forge
absl-py                   0.9.0                    pypi_0    pypi
astunparse                1.6.3                    pypi_0    pypi
ca-certificates           2020.6.24                     0
cachetools                4.1.1                    pypi_0    pypi
certifi                   2020.6.20                py36_0
chardet                   3.0.4                    pypi_0    pypi
gast                      0.3.3                    pypi_0    pypi
google-auth               1.20.0                   pypi_0    pypi
google-auth-oauthlib      0.4.1                    pypi_0    pypi
google-pasta              0.2.0                    pypi_0    pypi
grpcio                    1.31.0                   pypi_0    pypi
h5py                      2.10.0                   pypi_0    pypi
idna                      2.10                     pypi_0    pypi
importlib-metadata        1.7.0                    pypi_0    pypi
keras                     2.4.3                    pypi_0    pypi
keras-preprocessing       1.1.2                    pypi_0    pypi
ld_impl_linux-64          2.34                 hc38a660_9    conda-forge
libffi                    3.2.1             he1b5a44_1007    conda-forge
libgcc-ng                 9.3.0               h24d8f2e_14    conda-forge
libgomp                   9.3.0               h24d8f2e_14    conda-forge
libstdcxx-ng              9.3.0               hdf63c60_14    conda-forge
markdown                  3.2.2                    pypi_0    pypi
ncurses                   6.2                  he1b5a44_1    conda-forge
numpy                     1.18.5                   pypi_0    pypi
oauthlib                  3.1.0                    pypi_0    pypi
openssl                   1.1.1g               h7b6447c_0
opt-einsum                3.3.0                    pypi_0    pypi
pillow                    7.2.0                    pypi_0    pypi
pip                       20.2.1                     py_0    conda-forge
protobuf                  3.12.4                   pypi_0    pypi
pyasn1                    0.4.8                    pypi_0    pypi
pyasn1-modules            0.2.8                    pypi_0    pypi
python                    3.6.10               hcf32534_1
pyyaml                    3.12                     pypi_0    pypi
readline                  8.0                  he28a2e2_2    conda-forge
requests                  2.24.0                   pypi_0    pypi
requests-oauthlib         1.3.0                    pypi_0    pypi
rsa                       4.6                      pypi_0    pypi
scipy                     1.4.1                    pypi_0    pypi
setuptools                49.2.0                   py36_0
six                       1.15.0                   pypi_0    pypi
sqlite                    3.32.3               hcee41ef_1    conda-forge
tensorboard               2.3.0                    pypi_0    pypi
tensorboard-plugin-wit    1.7.0                    pypi_0    pypi
tensorflow                2.3.0                    pypi_0    pypi
tensorflow-estimator      2.3.0                    pypi_0    pypi
tensorflow-gpu            2.2.0                    pypi_0    pypi
tensorflow-hub            0.8.0                    pypi_0    pypi
termcolor                 1.1.0                    pypi_0    pypi
tk                        8.6.10               hed695b0_0    conda-forge
urllib3                   1.25.10                  pypi_0    pypi
werkzeug                  1.0.1                    pypi_0    pypi
wheel                     0.34.2                     py_1    conda-forge
wrapt                     1.12.1                   pypi_0    pypi
xz                        5.2.5                h516909a_1    conda-forge
zipp                      3.1.0                    pypi_0    pypi
zlib                      1.2.11            h516909a_1006    conda-forge

(sixxDL) onesixx@cf1d8cf6e830:/usr/lib/R/etc$ conda install pandas
(sixxDL) onesixx@cf1d8cf6e830:/usr/lib/R/etc$ conda install matplotlib

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