Hi everyone, I'm trying to create a network visualization with python using the networkx package. Unfortunately I'm getting a "AttributeError: module 'scipy.sparse' has no attribute 'coo_array'" at the end of my code. I've tried to fix it but every help in the internet points towards upgrading pip or conda which I've done and still get the same error. I'm using jupyter notebooks - any help would be greatly appreciated!
#Prerequisites
import sys
!{sys.executable} -m pip install --user networkx
!{sys.executable} -m pip install --user numpy
!{sys.executable} -m pip install --user pandas
pip install notebook --upgrade
conda upgrade notebook
import networkx as nx
import numpy as np
import pandas as pd
from pathlib import Path
from pandas import DataFrame
#Read in Source File - NB this must match the schema requirements
df_InputData = pd.read_excel("/Users/paulkruse/Desktop/FR/Fr1.xlsx")
Src_Column = 'Source ID'
Tgt_Column = 'Target ID'
print(df_InputData);
#Nodes are positioned using the Fruchterman-Reingold force-directed algorithm.
Q = nx.Graph()
arr_SrcTgt= np.array(df_InputData[[Src_Column, Tgt_Column]])
print(arr_SrcTgt);
Q.add_edges_from(arr_SrcTgt)
dict_Coords = nx.spring_layout(Q)
It seems that your scipy version is out of date. The most recent version 1.8.1 certainly has coo_array function. One way to resolve this should be to upgrade scipy. If you're doing this from inside jupyter notebook, then use
!pip install --user scipy==1.8.1
Make sure to restart kernel after installation.
Related
I try to run this code:
from cdlib import algorithms
import networkx as nx
G = nx.karate_club_graph()
coms = algorithms.louvain(G, resolution=1., randomize=False)
but the error remains the same.
I have tried all options given by
AttributeError: module 'networkx.algorithms.community' has no attribute 'best_partition'
but it doesn't work.
Also, I'm working in Google Colab and I have installed cdlib.
If still useful, this worked out for me :
pip uninstall community
pip install python-louvain
I could import community afterwards and use best_partition.
From this, it looks like there is a community python package that conflicts with the python-louvain package. Both packages happen to be pre-installed in google colab kernels. To avoid this conflict, I just uninstalled networkx, python-louvain and community and then reinstalled networkx and python-louvain. Finally I installed cdlib.
After that I ran your code and everything worked well. So overall the code is:
!pip uninstall networkx
!pip uninstall python-louvain
!pip uninstall community
!pip install python-louvain
!pip install networkx
!pip install cdlib
from cdlib import algorithms
import networkx as nx
G = nx.karate_club_graph()
coms = algorithms.louvain(G, resolution=1., randomize=False)
print(coms)
And the ouput gives:
I can't import pyLDAvis.
It is installed but for some reason, I can not import it.
I tried
conda update anaconda
pip install --upgrade pip
pip install --upgrade jupyter notebook
pip install pyLDAvis
Installing pyLDAvis returns the message 'requirement already satisfied'. So I tried uninstalling and reinstalled the package but still doesn't work. This never happened with any other packages.
How can I solve this problem?
The pyLDAvis gensim name changed. When I use gensim_models rather than gensim the interactive viz works.
The 'gensim_models' name is in the latest commit to bmabey's repo.
import pyLDAvis
import pyLDAvis.gensim_models as gensimvis
pyLDAvis.enable_notebook()
# feed the LDA model into the pyLDAvis instance
lda_viz = gensimvis.prepare(ldamodel, corpus, dictionary)
Following code worked for me and I'm using Google Colaboratory.
!pip install pyLDAvis
import pyLDAvis
import pyLDAvis.gensim_models
pyLDAvis.enable_notebook()
vis = pyLDAvis.gensim_models.prepare(ldamodel, doc_term_matrix, dictionary)
vis
If you are working in jupyter notebook (python vs3.3.0)
"the No module named ‘pyLDAvis.gensim’"
error can be solved using:
import pyLDAvis.gensim_models
instead of:
import pyLDAvis.gensim
Try this
!pip install pyLDAvis
import pyLDAvis.gensim_models
This should work.
I faced the same issue and it worked for me
Please follow the below
import pyLDAvis.gensim_models as gensimvis
pyLDAvis.enable_notebook()
vis = gensimvis.prepare(lda_model, corpus, dictionary)
vis
The pip installation may not agree with Anaconda. It is better to use conda installation.
conda install -c conda-forge pyldavis
Then it should work fine with Anaconda Python.
I have created a virtual environment with following syntax in the windows terminal:
conda create --prefix ./modinenv python=3.6 numpy
conda activate e:\modin\modinenv
pip install modin[dask]
jupyter notebook
In a new python file, when i executed this following command:
import modin.pandas as pd
it gives me an error: modulenotfounderror no module named 'modin'
I searched many forum, but got no workable response to this.
I even tried following before import statement:
import os
os.environ["MODIN_ENGINE"] = "dask" # Modin will use Dask
import modin.pandas as pd
This also does not work here. So any help in this regard is appreciated.
Thanks
Gopinath
I have exactly the same environment setting as you.
import os
import modin.pandas as pd
os.environ["MODIN_ENGINE"] = "dask"
Try following:
It seems that your Modin may not install properly, so please try pip install -U modin according to Modin documentation
pip3 install 'modin[dask]'
I'm trying to learn PyCaret but having a problem when trying to import it in Jupyter Lab.
I'm working in a virtualenv and installed pycaret via pip:
pip install pycaret
I can confirm its installed via pip list:
prompt-toolkit 3.0.7
protobuf 3.13.0
py 1.9.0
pycaret 2.1.2
pycparser 2.20
The very first line in the notebook is:
from pycaret.nlp import *
however this results in:
ModuleNotFoundError Traceback (most recent call last)
<ipython-input-3-7c206b4a9ead> in <module>
----> 1 from pycaret.nlp import *
2 import psycopg2
3 import sys, os
4 import numpy as np
5 import pandas as pd
ModuleNotFoundError: No module named 'pycaret'
I'm pulling my hair out trying to figure this out and can't find anyone else with something similar.
I've tried to import via the python shell as well and that works perfectly.
You should create a seperate environment for installing time series alpha module
after creating a new environment and switching into
pip install pycaret-ts-alpha
and then you will be able to access
https://towardsdatascience.com/announcing-pycarets-new-time-series-module-b6e724d4636c
I forgot that you had to install modules via Jupyter.
Following this guide: http://jakevdp.github.io/blog/2017/12/05/installing-python-packages-from-jupyter/index.html
Installing like so:
# Install a pip package in the current Jupyter kernel
import sys
!{sys.executable} -m pip install numpy
Got it working
First Create a new environment conda documentation
Second Download the Pycaret with this instruction
Third check your sklearn version is greater thansklearn>=0.23.2.
Because if it's greater PyCaret is not compatible with that.
Nothing works for you? Download directly from github with this command
pip install git+https://github.com/pycaret/pycaret.git#egg=pycaret
I read on the tutorial page of pycaret that to install it through a Jupyter-notebook you should add an exclamation mark in front of the python command in the Jupyter-cell:
!pip install pycaret
I have technically already installed pandas-profiling using
pip install pandas-profiling
But when I try to import it, I get the following error:
import numpy as np
import pandas as pd
import pandas_profiling
---------------------------------------------------------------------------
ModuleNotFoundError Traceback (most recent call last)
<ipython-input-1-e1a23f2a6f04> in <module>()
1 import numpy as np
2 import pandas as pd
3 import pandas_profiling
ModuleNotFoundError: No module named 'pandas_profiling'
First Error Image
So I tried installing it in Jupyter Notebook and got the following error as well:
import sys
!{sys.executable} -m pip install pandas-profiling
Collecting pandas-profiling
Could not find a version that satisfies the requirement pandas-profiling
(from versions: )
No matching distribution found for pandas-profiling
Second Error Image
I am also unable to install it using conda for both as I am unable to establish a connection to conda.anaconda.org for some reason.
To others who are looking to resolve this issue try these alternate steps :
Run pip install pandas-profiling command in a separate cell in the jupyter notebook.
After this just restart the kernal and run again. This should definitely work. Worked for me.
Based on the comments I was able to figure out the issue. I had to install jupyter notebook outside of the Anaconda root env and open it from the terminal.
pip3 install jupyter notebook
Once I did that it imported properly.
Steps:
Download the ZIP
Open Anaconda Prompt and go to the directory and extract the files to a folder
cd
C:\Users\farah\Downloads\pandas-profiling-master\pandas-profiling-master
Then type python setup.py install
Now you can use:
import pandas_profiling as pp
df = pd.read_csv('1234.csv')
pp.ProfileReport(df)
Reference: Pandas profiling
!pip install pandas_profiling # Run this from Jupytor notebook Ignore the warnings if any
from pandas_profiling import ProfileReport #restart the kernel if throws error
ProfileReport(df)
Note: This worked for me on Windows 10
From Anaconda Prompt:
conda install -c conda-forge pandas-profiling