Write png with pydotplus doesn't work in jupyter

Question

I try to make png from decision tree that i made before from a data. Using package pydotplus, I want to save the png in my local storage and show it. It work in google colab, but it error in jupyter. It said

GraphViz's executables not found

This is my code

from sklearn.tree import export_graphviz 
from six import StringIO
from IPython.display import Image  
import pydotplus

feature_cols = ['Pregnancies', 'Glucose', 'BloodPressure', 'SkinThickness', 'Insulin',
       'BMI', 'DiabetesPedigreeFunction', 'Age']
dot_data = StringIO()
export_graphviz(clf, out_file=dot_data,  
                filled=True, rounded=True,
                special_characters=True, feature_names = feature_cols, class_names=['0','1'])
graph = pydotplus.graphviz.graph_from_dot_data(dot_data.getvalue())  
graph.write_png('diabetes.png')
Image(graph.create_png())

The error show in jupyter

---------------------------------------------------------------------------
InvocationException                       Traceback (most recent call last)
Input In [46], in <cell line: 14>()
     12 graph = pydotplus.graphviz.graph_from_dot_data(dot_data.getvalue())  
     13 # graph.write_png('file//diabetes.png')
---> 14 Image(graph.create_png())

File ~\.conda\envs\butterfly\lib\site-packages\pydotplus\graphviz.py:1797, in Dot.__init__.<locals>.<lambda>(f, prog)
   1792 # Automatically creates all the methods enabling the creation
   1793 # of output in any of the supported formats.
   1794 for frmt in self.formats:
   1795     self.__setattr__(
   1796         'create_' + frmt,
-> 1797         lambda f=frmt, prog=self.prog: self.create(format=f, prog=prog)
   1798     )
   1799     f = self.__dict__['create_' + frmt]
   1800     f.__doc__ = (
   1801         '''Refer to the docstring accompanying the'''
   1802         ''''create' method for more information.'''
   1803     )

File ~\.conda\envs\butterfly\lib\site-packages\pydotplus\graphviz.py:1959, in Dot.create(self, prog, format)
   1957     self.progs = find_graphviz()
   1958     if self.progs is None:
-> 1959         raise InvocationException(
   1960             'GraphViz\'s executables not found')
   1962 if prog not in self.progs:
   1963     raise InvocationException(
   1964         'GraphViz\'s executable "%s" not found' % prog)

InvocationException: GraphViz's executables not found

I hope you guys can help me to solve this problem

Blueman0002 · Answer 1 · 2022-03-14T14:20:51.910

0

Hello Try these answers in the link, Maybe this is helpful. Or you can try importing OpenCV or PIL or matplotlib and write the variable as a png file. Install OpenCV library before doing this. You can do it by

#Installing OpenCV library
conda install -c anaconda opencv

#importing opencv 
import cv2

#writing a variable as an image but it should be in an array format to achieve this.
cv2.imwrite("graph.png", graph)

edited Mar 14 '22 at 14:20

answered Mar 14 '22 at 14:08

Blueman0002

39
7

1

Still not work. It said the data type is not a numpy array – Mind Mon Mar 14 '22 at 14:30
Try converting the variable graph to an array and then write it as image. Can you see the plot in Jupiter without saving it, Have you tried that? – Blueman0002 Mar 14 '22 at 14:57
I using np.asarray(), but it still error. It said Overload resolution failed: img data type = 17 is not supported and Expected Ptr for argument 'img' – Mind Mon Mar 14 '22 at 15:05
what type is your graph variable? Try plotting using matplotlib. – Blueman0002 Mar 14 '22 at 17:49
it said pydotplus.graphviz.Dot – Mind Mon Mar 15 '22 at 00:16

Mind Mon · Accepted Answer · 2022-03-15T09:25:05.993

I will answer my question.

This question problem is in the file graphviz. I can fix this problem by download package from graphviz website. If you download from pip install pydotplus or pip install graphviz maybe you get the same error.

---------------------------------------------------------------------------
InvocationException                       Traceback (most recent call last)
Input In [46], in <cell line: 14>()
     12 graph = pydotplus.graphviz.graph_from_dot_data(dot_data.getvalue())  
     13 # graph.write_png('file//diabetes.png')
---> 14 Image(graph.create_png())

File ~\.conda\envs\butterfly\lib\site-packages\pydotplus\graphviz.py:1797, in Dot.__init__.<locals>.<lambda>(f, prog)
   1792 # Automatically creates all the methods enabling the creation
   1793 # of output in any of the supported formats.
   1794 for frmt in self.formats:
   1795     self.__setattr__(
   1796         'create_' + frmt,
-> 1797         lambda f=frmt, prog=self.prog: self.create(format=f, prog=prog)
   1798     )
   1799     f = self.__dict__['create_' + frmt]
   1800     f.__doc__ = (
   1801         '''Refer to the docstring accompanying the'''
   1802         ''''create' method for more information.'''
   1803     )

File ~\.conda\envs\butterfly\lib\site-packages\pydotplus\graphviz.py:1959, in Dot.create(self, prog, format)
   1957     self.progs = find_graphviz()
   1958     if self.progs is None:
-> 1959         raise InvocationException(
   1960             'GraphViz\'s executables not found')
   1962 if prog not in self.progs:
   1963     raise InvocationException(
   1964         'GraphViz\'s executable "%s" not found' % prog)

InvocationException: GraphViz's executables not found

The problem is in the library itself. So, try to download zip file from graphviz website and direct the extract file bin in my computer. This link will help you to the detail

As it’s currently written, your answer is unclear. Please [edit] to add additional details that will help others understand how this addresses the question asked. You can find more information on how to write good answers [in the help center](/help/how-to-answer). — Community, Mar 15 '22 at 07:22

Write png with pydotplus doesn't work in jupyter

2 Answers2