In f0nzie/rTorch: R Bindings to 'PyTorch'

knitr::opts_chunk$set(
  collapse = TRUE,
  comment = "#>"
)

library(rTorch)
reticulate::py_config()

# trees <- trees

```{python, engine="python3", eval=FALSE}

https://stackoverflow.com/a/56860331/5270873

import PyQt5 import pandas as pd from pandas import Series, DataFrame import numpy as np import matplotlib import matplotlib.pyplot as plt

trees = np.array(r.trees) #Imported an internal R dataset. It got rid of headers and first row. Don't know how to deal with that right now. type(trees) np.shape(trees) print(trees[1:6,:])

plt.plot(trees[:,0], trees[:,1]) plt.show() plt.clf() #Reset plot surface

* Error printout from python block

RuntimeError: Evaluation error: ValueError: Format 'ragg_png' is not supported (supported formats: eps, jpeg, jpg, pdf, pgf, png, ps, raw, rgba, svg, svgz, tif, tiff)

## 2nd

```r
# https://stackoverflow.com/a/56872635/5270873
# https://stackoverflow.com/a/56860331/5270873
library(knitr)
knitr::opts_chunk$set(echo = TRUE)
library(reticulate) #Allows for Python to be run in chunks

```{python import, eval=FALSE} import os

os.environ['QT_QPA_PLATFORM_PLUGIN_PATH'] = '~/Anaconda3/Library/plugins/platforms'

import numpy as np import matplotlib.pyplot as plt import PyQt5

trees = np.array(r.trees) #Imported an internal R dataset. It got rid of headers and first row. Don't know how to deal with that right now. type(trees) np.shape(trees) print(trees[1:6,:])

plt.plot(trees[:,0], trees[:,1]) plt.show() plt.clf() #Reset plot surface

* Error printout from python block

-- RMarkdown error ------------------------------------------------------------- Quitting from lines 73-83 (matplotlib-rmarkdown-2.Rmd) Error in py_call_impl(callable, dots$args, dots$keywords) : RuntimeError: Evaluation error: ValueError: Format 'ragg_png' is not supported (supported formats: eps, jpeg, jpg, pdf, pgf, png, ps, raw, rgba, svg, svgz, tif, tiff)

## 3rd 

```r
# https://stackoverflow.com/q/58502671/5270873
library(reticulate)

```{python, echo=FALSE, include=FALSE, warning=FALSE, eval=FALSE} import matplotlib as mpl import matplotlib.pyplot as plt

Setting some default plotting features to give nicer plots. This can be commented out for beginners.

rc_fonts = { "text.usetex": True, 'text.latex.preview': True, # Gives correct legend alignment. 'mathtext.default': 'regular', 'figure.figsize': (6, 4), "font.family": "serif", "font.serif": "computer modern roman", } mpl.rcParams.update(rc_fonts)

plt.plot([0, 2, 1, 4]) plt.title(r'Some Latex with symbol \$') plt.show()

* Error

-- RMarkdown error ------------------------------------------------------------- Quitting from lines 113-116 (matplotlib-rmarkdown-2.Rmd) Error in py_call_impl(callable, dots$args, dots$keywords) : RuntimeError: Evaluation error: ValueError: Format 'ragg_png' is not supported (supported formats: eps, jpeg, jpg, pdf, pgf, png, ps, raw, rgba, svg, svgz, tif, tiff)

## 4th

```r
# https://community.rstudio.com/t/how-to-display-the-plot-in-the-python-chunk/22039/3
library(reticulate)
# use_python("/usr/bin/python3")
use_condaenv("r-torch")
matplotlib <- import("matplotlib")
matplotlib$use("Agg", force = TRUE)

```{python, engine='python3', eval=FALSE} import pandas as pd import matplotlib.pyplot as plt

df = pd.DataFrame([[1, 2], [3, 4], [4, 3], [2, 3]]) fig = plt.figure(figsize=(14,8))

for i in df.columns: ax = plt.subplot(2,1,i+1) df[[i]].plot(ax=ax) print(i)

plt.show()

* Error

-- RMarkdown error ------------------------------------------------------------- Quitting from lines 136-146 (matplotlib-rmarkdown-2.Rmd) Error in py_call_impl(callable, dots$args, dots$keywords) : RuntimeError: Evaluation error: ValueError: Format 'ragg_png' is not supported (supported formats: eps, jpeg, jpg, pdf, pgf, png, ps, raw, rgba, svg, svgz, tif, tiff)

## 5th
* Throwing error

```{python pyplot, eval=FALSE}
import matplotlib
import matplotlib.pyplot as plt
import numpy as np

t = np.arange(0.0, 2.0, 0.01)
s = 1 + np.sin(2 * np.pi * t)

fig, ax = plt.subplots()
ax.plot(t, s)

ax.set(xlabel='time (s)', ylabel='voltage (mV)',
       title='About as simple as it gets, folks')
ax.grid()

plt.show()

-- RMarkdown error -------------------------------------------------------------
Quitting from lines 165-180 (matplotlib-rmarkdown-2.Rmd) 
Error in py_call_impl(callable, dots$args, dots$keywords) : 
  RuntimeError: Evaluation error: ValueError: Format 'ragg_png' is not supported (supported formats: eps, jpeg, jpg, pdf, pgf, png, ps, raw, rgba, svg, svgz, tif, tiff)
  --------------------------------------------------------------------------------
Error : Failed to render RMarkdown
Error: callr subprocess failed: Failed to render RMarkdown
Type .Last.error.trace to see where the error occured

6th

```{python, engine="python3", eval=FALSE}

https://matplotlib.org/3.1.1/gallery/misc/print_stdout_sgskip.html#sphx-glr-gallery-misc-print-stdout-sgskip-py

import sys import matplotlib matplotlib.use('Agg') import matplotlib.pyplot as plt

plt.plot([1, 2, 3]) plt.savefig(sys.stdout.buffer)

<!-- python block giving error -->

-- RMarkdown error ------------------------------------------------------------- Quitting from lines 85-93 (installation.Rmd) Error in py_call_impl(callable, dots$args, dots$keywords) : AttributeError: '_io.StringIO' object has no attribute 'buffer'

Detailed traceback: File "", line 1, in

---

Error : Failed to render RMarkdown Error: callr subprocess failed: Failed to render RMarkdown Type .Last.error.trace to see where the error occured

## 7th

```{python}
# https://stackoverflow.com/a/458295/5270873
import matplotlib
from matplotlib.pyplot import plot, draw, show
plot([1,2,3])
draw()
print('continue computation')

# at the end call show to ensure window won't close.
# show()

-- RMarkdown error -------------------------------------------------------------
Quitting from lines 72-81 (matplotlib-rmarkdown.Rmd) 
Error in py_call_impl(callable, dots$args, dots$keywords) : 
  RuntimeError: Evaluation error: ValueError: Format 'ragg_png' is not supported (supported formats: eps, jpeg, jpg, pdf, pgf, png, ps, raw, rgba, svg, svgz, tif, tiff)

Detailed traceback: 
  File "/home/msfz751/anaconda3/envs/r-torch/lib/python3.7/site-packages/matplotlib/pyplot.py", line 843, in savefig
    res = fig.savefig(*args, **kwargs)
  File "/home/msfz751/anaconda3/envs/r-torch/lib/python3.7/site-packages/matplotlib/figure.py", line 2311, in savefig
    self.canvas.print_figure(fname, **kwargs)
  File "/home/msfz751/anaconda3/envs/r-torch/lib/python3.7/site-packages/matplotlib/backends/backend_qt5agg.py", line 81, in print_figure
    super().print_figure(*args, **kwargs)
  File "/home/msfz751/anaconda3/envs/r-torch/lib/python3.7/site-packages/matplotlib/backend_bases.py", line 2150, in print_figure
    canvas = self._get_output_canvas(backend, format)
  File "/home/msfz751/anaconda3/envs/r-torch/lib/python3.7/site-packages/matplotlib/backend_bases.py", line 2081, in _get_output_canvas
    .format(fmt, ", ".join(sorted(self.get_supported_filetypes()))))
.

Detailed traceback: 
  File "<string>", line 1, in <module>
  File "/home/msfz751/R/x86_64-pc-linux-gnu-library/3.6/reticulate/python/rpytools/call.py", line 21, in python_function
    raise RuntimeError(res[kErrorKey])

--------------------------------------------------------------------------------
Error : Failed to render RMarkdown
Error: callr subprocess failed: Failed to render RMarkdown
Type .Last.error.trace to see where the error occured

```{python, eval=FALSE} import matplotlib.pyplot as plt plt.plot([1,2,3]) plt.show(block=False)

other code

[...]

Put

plt.show()

-- RMarkdown error ------------------------------------------------------------- Quitting from lines 70-78 (matplotlib-rmarkdown.Rmd) Error in py_call_impl(callable, dots$args, dots$keywords) : RuntimeError: Evaluation error: ValueError: Format 'ragg_png' is not supported (supported formats: eps, jpeg, jpg, pdf, pgf, png, ps, raw, rgba, svg, svgz, tif, tiff)

## draw, pause

```{python, eval=FALSE}
# https://stackoverflow.com/a/40509088/5270873
import matplotlib.pyplot as plt

plt.scatter([0], [1])
plt.draw()
plt.show(block=False)

for i in range(10):
    plt.scatter([i], [i+1])
    plt.draw()
    plt.pause(0.001)

-- RMarkdown error -------------------------------------------------------------
Quitting from lines 87-98 (matplotlib-rmarkdown.Rmd) 
Error in py_call_impl(callable, dots$args, dots$keywords) : 
  RuntimeError: Evaluation error: ValueError: Format 'ragg_png' is not supported (supported formats: eps, jpeg, jpg, pdf, pgf, png, ps, raw, rgba, svg, svgz, tif, tiff)

animation

# https://stackoverflow.com/a/47690171/5270873
library(knitr)
library(reticulate)
knitr::knit_engines$set(python = reticulate::eng_python)

```{python, eval=FALSE} import numpy as np import matplotlib.pyplot as plt import numpy.random as rng import matplotlib.cm as cm from matplotlib.animation import FuncAnimation

radii=(rng.random(int(1e3))+1)2 iota=2np.pirng.random(int(1e3)) x_posit=np.sqrt(radii)np.cos(iota) y_posit=np.sqrt(radii)np.sin(iota) plt.plot(x_posit, y_posit, 'go')

plt.show()

-- RMarkdown error ------------------------------------------------------------- Quitting from lines 121-134 (matplotlib-rmarkdown.Rmd) Error in py_call_impl(callable, dots$args, dots$keywords) : RuntimeError: Evaluation error: ValueError: Format 'ragg_png' is not supported (supported formats: eps, jpeg, jpg, pdf, pgf, png, ps, raw, rgba, svg, svgz, tif, tiff) ```

f0nzie/rTorch documentation built on Oct. 28, 2021, 5:40 a.m.