AttributeError: module 'pydot' has no attribute 'find_graphviz' #3210

ghost · 2016-07-13T03:46:05Z

My os is Ubuntu 14.04 and python version is 3.5. I just simply did what the document said:

from keras.utils.visualize_util import plot

And what I got is:

   ---------------------------------------------------------------------------
AttributeError                            Traceback (most recent call last)
<ipython-input-90-65016ddab3cd> in <module>()
----> 1 from keras.utils.visualize_util import plot

/home/lcc/anaconda3/envs/sensequant/lib/python3.5/site-packages/keras/utils/visualize_util.py in <module>()
      5     # fall back on pydot if necessary
      6     import pydot
----> 7 if not pydot.find_graphviz():
      8     raise RuntimeError('Failed to import pydot. You must install pydot'
      9                        ' and graphviz for `pydotprint` to work.')

AttributeError: module 'pydot' has no attribute 'find_graphviz'

Indeed I have ensured that pydot, pydotplus, graphviz have been installed as I could import them properly. Do you know how to fix it? Thank you in advance!

The text was updated successfully, but these errors were encountered:

tboquet · 2016-07-13T06:34:40Z

You can try to install pydot-ng.

ghost · 2016-07-13T06:37:48Z

@tboquet Thanks for your help! But this time I got this error: RuntimeError: Failed to import pydot. You must install pydot and graphviz forpydotprintto work. But I have installed pydot and graphviz already. Do you have any idea about that?

oeway · 2016-07-13T20:32:28Z

Here is how I fix the problem:
sudo pip install pydot==1.0.2 --upgrade
It seems pydot don't provide a function named find_graphviz anymore.

ghost · 2016-07-14T01:34:08Z

@oeway The same error still exists....

oeway · 2016-07-14T08:16:01Z

Could you try to install from here: https://github.com/nlhepler/pydot

As you can see from here https://github.com/nlhepler/pydot/blob/master/pydot/__init__.py#L474 , they do have find_graphviz function.

litstrong · 2016-07-14T22:43:00Z

@rylanchiu
I had same problem like you had.

I think it is caused by could not find the graphviz although graphviz is installed.

When I use brew install graphviz, there was a warning said not linked.

It works and linked successful after I tried to uninstall it and re-install. Or you can try brew link ?

hadim · 2016-08-24T00:46:21Z

Would it be possible to add support for pydotplus since it's available in conda-forge for python 3.5 while pydot is not available with conda ?

nouiz · 2016-08-24T00:58:31Z

The problem is that pydot changed a small part of its interface. We fixed
that in Theano in this commit:

Theano/Theano@aefd29d

It would be easy to do the same in keras to suport its newer version.

On Tue, Aug 23, 2016 at 8:46 PM, Hadrien Mary [email protected]
wrote:

Would it be possible to add support for pydotplus since it's available in
conda-forge for python 3.5 while pydot is not available with conda ?

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alainrichardt · 2016-09-01T19:57:36Z

pydot-ng will give you pydot that satisfies the keras package, use
pip install pydot-ng
to install it in your virtualenv.

On ubuntu you need to have the "dot" executable in your PATH, you can do this by installing the graphviz package:
apt-get install graphviz

zhourunlai · 2016-10-18T03:40:51Z

First, the pydot will find_graphviz, in line 7 of visualize_util.py.
Then, it will check these PATH to judge whether the graphviz exists, in line 605 of pydot_ng/__init__.py.

'/usr/bin', '/usr/local/bin',
            '/opt/local/bin',
            '/opt/bin', '/sw/bin', '/usr/share',
            '/Applications/Graphviz.app/Contents/MacOS/'

So, we should install graphviz by these way:

download APP, this will put to /Applications/Graphviz.app/Contents/MacOS/;
command brew install graphviz, this will create the link to /usr/local/bin.

eyaler · 2016-10-20T16:15:01Z

pydot pre 1.2.0 do not support python 3...

dotasheepliu · 2016-11-08T05:55:29Z

I can run it after installing everything mentioned above.

manashmandal · 2016-11-15T21:31:46Z

I faced similar problem and executing the following commands solved my problem.

pip install pydot-ng
sudo apt-get install graphviz

Ellenisawake · 2016-12-20T07:01:46Z

Same issue here...
Seems that pydot-ng supports up to Python 3.4?
And pydot 1.1.0 not available in conda...
For Keras to work properly with Python 3.5, any consideration to embed pydotplus?

Tahsin-Mayeesha · 2017-01-24T15:17:42Z

http://stackoverflow.com/questions/36869258/how-to-use-graphviz-with-anaconda-spyder

Downloading Graphviz from their website (msi version in my case given I'm on windows) and adding
C:\Program Files (x86)\Graphviz2.38\bin to my system variables in PATH worked for me.

sookinoby · 2017-02-01T09:41:18Z

Thanks @Tahsin-Mayeesha . This is the right solution.

CreatCodeBuild · 2017-02-05T06:40:06Z

I tried install all the requirement both from pip and from binary installation on system and I configured my PATH. It doesn't work.
I am using Windows 10, Python 3.5.2 |Anaconda 4.0.0 (64-bit)| (default, Jul 5 2016, 11:41:13) [MSC v.1900 64 bit (AMD64)] on win32

Regardless, how useful is this visualization?
Is there any third-party library I can use?

sookinoby · 2017-02-05T06:52:50Z

What is the error you getting? I
Visualization is not very useful - sample - https://github.com/sookinoby/behavior-cloning/blob/master/images/model.png
I edited the image to wrap around.

model.summary() is more useful.
I don't know any third party library. `

CreatCodeBuild · 2017-02-05T07:03:54Z

@sookinoby

    from keras.utils.visualize_util import plot
  File "D:\Anaconda3\lib\site-packages\keras\utils\visualize_util.py", line 13, in <module>
    raise RuntimeError('Failed to import pydot. You must install pydot'
RuntimeError: Failed to import pydot. You must install pydot and graphviz for `pydotprint` to work.

I can import pydot, graphviz.
I can also use dot at Terminal.

HanyEjust · 2017-02-05T07:11:04Z

pip install pydot-ng conda install graphviz pip uninstall pyparsing pip install -Iv https://pypi.python.org/packages/source/p/pyparsing/pyparsing-1.5.7.tar.gz#md5=9be0fcdcc595199c646ab317c1d9a709 pip install pydot conda install -c https://conda.binstar.org/sstromberg pydot conda install GraphViz

…

On Sun, Feb 5, 2017 at 9:04 AM, Albert X.W. ***@***.***> wrote: @sookinoby <https://github.com/sookinoby> from keras.utils.visualize_util import plot File "D:\Anaconda3\lib\site-packages\keras\utils\visualize_util.py", line 13, in <module> raise RuntimeError('Failed to import pydot. You must install pydot' RuntimeError: Failed to import pydot. You must install pydot and graphviz for `pydotprint` to work. I can import pydot, graphviz. I can also use dot at Terminal. — You are receiving this because you are subscribed to this thread. Reply to this email directly, view it on GitHub <#3210 (comment)>, or mute the thread <https://github.com/notifications/unsubscribe-auth/ARxwS88xOy6b-WuEsD0p0CjQhfW31QvRks5rZXRogaJpZM4JLCWx> .

-- *_________________* *Hany A. EL-Ghaish* *E-JUST University* *PhD Candidate at School of Communication and Computer Engineering, Egypt-Japan University of Science and Technology * M. 01004393715

sookinoby · 2017-02-05T07:15:26Z

install - http://www.graphviz.org/Download_windows.php. Add the bin folder to windows path. Everything will work fine.

naotokui · 2017-02-08T01:09:41Z

on Mac, the following commands fixed the issue:

sudo pip install pydot-ng
brew install graphviz

tomas-angles · 2017-02-18T22:40:11Z

On Mac: If you are working in a virtual environment with Anaconda (always do that to avoid messing up the python in your OS):

source activate virtualenv_name
conda install graphviz
pip install pydot-ng

And run your script from terminal. As a sanity check (in terminal):

python
import pydot_ng as pydot
pydot.find_graphviz()

The output should be a string similar to: "{'dot': 'your_path/bin/dot', 'twopi': ..."

But, @sookinoby is right, model.summary() is much more useful.

tboggs · 2017-03-06T14:18:26Z

I have this issue with python3 on ubuntu 16.04. Since I know I have the necessary packages installed, I do the following to avoid the error:

import pydot
pydot.find_graphviz = lambda: True

jemshit · 2017-04-17T08:22:11Z

For Mac, we need brew install graphviz besides pip install graphviz

enduringstack · 2017-05-31T01:00:27Z

try pydotplus

diyali03 · 2017-07-12T09:12:25Z

I have this issue with ubuntu 16.04
But raises import error:

ImportError('Failed to import pydot. You must install pydot'
ImportError: Failed to import pydot. You must install pydot and graphviz for `pydotprint` to work.

This can help me

pip install pydot-ng
sudo apt-get install graphviz

DerekGrant · 2017-09-12T13:49:52Z

For window, this because python can't find graphviz path, in pydot_ng init.py
It just search path for linux and Mac user, will can fix this problem by add path

for path in (
            '/usr/bin', '/usr/local/bin',
            '/opt/local/bin',
            '/opt/bin', '/sw/bin', '/usr/share',
            '/Applications/Graphviz.app/Contents/MacOS/'
            ):
        progs = __find_executables(path)
        if progs is not None:
            print("Used path")
            return progs

We should modify to

    for path in (
            '/usr/bin', '/usr/local/bin',
            '/opt/local/bin',
            '/opt/bin', '/sw/bin', '/usr/share',
            '/Applications/Graphviz.app/Contents/MacOS/'
            ):
        myGraphVizPath='D:\\Programming\\Graphviz2.38\\bin'#my graphviz path 
        progs = __find_executables(myGraphVizPath)
        if progs is not None:
            print("Used path")
            return progs

    # Failed to find GraphViz
    return None

http://blog.csdn.net/u014376030/article/details/69945238

stale · 2017-12-11T15:08:58Z

This issue has been automatically marked as stale because it has not had recent activity. It will be closed after 30 days if no further activity occurs, but feel free to re-open a closed issue if needed.

eyaler · 2017-12-11T15:17:43Z

no not stale unless a human says so

tharuniitk · 2018-01-19T08:40:06Z

HI @tomas-angles :
I followed the procedure given in your comments for installing pydot, graphviz. Every thing works fine as far as sanity check is concerned(in terminal):

python
import pydot_ng as pydot
pydot.find_graphviz()

import pydot_ng
pydot_ng.find_graphviz()
{'twopi': '/usr/bin/twopi', 'fdp': '/usr/bin/fdp', 'circo': '/usr/bin/circo', 'neato': '/usr/bin/neato', 'dot': '/usr/bin/dot', 'sfdp': '/usr/bin/sfdp'}

But the following lines of code in python script run under keras leaves an error below again and again:

from keras.utils import plot_model
plot_model(model1, to_file='model.png')

plot_model(model1, to_file='model.png')
File "/home/tharun/anaconda2/envs/kerasdl/lib/python2.7/site-packages/keras/utils/vis_utils.py", line 132, in plot_model
dot = model_to_dot(model, show_shapes, show_layer_names, rankdir)
File "/home/tharun/anaconda2/envs/kerasdl/lib/python2.7/site-packages/keras/utils/vis_utils.py", line 52, in model_to_dot
_check_pydot()
File "/home/tharun/anaconda2/envs/kerasdl/lib/python2.7/site-packages/keras/utils/vis_utils.py", line 27, in _check_pydot
raise ImportError('Failed to import pydot. You must install pydot'
ImportError: Failed to import pydot. You must install pydot and graphviz for pydotprint to work.

johnyf · 2018-01-20T21:35:21Z

Please see #5313 (comment) and #3216 (comment).

Comments about installation: https://stackoverflow.com/a/47209738/1959808
(GraphViz is needed; the Python package graphviz is unrelated to pydot).

pyaf · 2018-03-01T07:57:58Z

pip install pydot-ng
conda install graphviz

stajilov · 2018-04-11T07:23:29Z

On macOS:
pip3 install pydot-ng
brew install graphviz

johnyf · 2018-04-11T08:27:46Z

This issue has been addressed by #6398, specifically 54a417f. It can be closed.
Currently, there is no line in keras that calls the nonexistent find_graphviz:

keras/keras/utils/vis_utils.py

Lines 23 to 32 in e73199d

    
           def _check_pydot(): 
        
               try: 
        
                   # Attempt to create an image of a blank graph 
        
                   # to check the pydot/graphviz installation. 
        
                   pydot.Dot.create(pydot.Dot()) 
        
               except Exception: 
        
                   # pydot raises a generic Exception here, 
        
                   # so no specific class can be caught. 
        
                   raise ImportError('Failed to import pydot. You must install pydot' 
        
                                     ' and graphviz for `pydotprint` to work.')

charusanmathi · 2024-05-04T12:29:20Z

I had the same error on my MacBook and I installed pydot on Jupyter notebook

! pip install pydot

But grraphviz wouldn't work, so I went to graphviz documentations and installed home-brew on my terminal and then
used the following command

brew install graphviz

This worked well and I could see the plot

pnb mentioned this issue Apr 25, 2017

Added support for new pydot versions to fix find_graphviz error #6398

Merged

stale bot added the stale label Dec 11, 2017

stale bot removed the stale label Dec 11, 2017

wt-huang closed this as completed Nov 2, 2018

AttributeError: module 'pydot' has no attribute 'find_graphviz' #3210

AttributeError: module 'pydot' has no attribute 'find_graphviz' #3210

Comments

ghost commented Jul 13, 2016 • edited by ghost Loading

tboquet commented Jul 13, 2016 • edited Loading

ghost commented Jul 13, 2016

oeway commented Jul 13, 2016

ghost commented Jul 14, 2016

oeway commented Jul 14, 2016

litstrong commented Jul 14, 2016

hadim commented Aug 24, 2016

nouiz commented Aug 24, 2016

alainrichardt commented Sep 1, 2016

zhourunlai commented Oct 18, 2016 • edited Loading

eyaler commented Oct 20, 2016

dotasheepliu commented Nov 8, 2016

manashmandal commented Nov 15, 2016

Ellenisawake commented Dec 20, 2016

Tahsin-Mayeesha commented Jan 24, 2017

sookinoby commented Feb 1, 2017

CreatCodeBuild commented Feb 5, 2017

sookinoby commented Feb 5, 2017

CreatCodeBuild commented Feb 5, 2017

HanyEjust commented Feb 5, 2017 via email

sookinoby commented Feb 5, 2017

naotokui commented Feb 8, 2017 • edited Loading

tomas-angles commented Feb 18, 2017 • edited Loading

tboggs commented Mar 6, 2017

jemshit commented Apr 17, 2017

enduringstack commented May 31, 2017

diyali03 commented Jul 12, 2017

DerekGrant commented Sep 12, 2017

stale bot commented Dec 11, 2017

eyaler commented Dec 11, 2017

tharuniitk commented Jan 19, 2018

johnyf commented Jan 20, 2018

pyaf commented Mar 1, 2018

stajilov commented Apr 11, 2018

johnyf commented Apr 11, 2018

charusanmathi commented May 4, 2024

ghost commented Jul 13, 2016 •

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