Running Anaconda Python Examples - python

I'd like to run any example .py script that uses matplotlib or pyqtgraph to see how it looks.
The problem is, none of the examples included with the Anaconda3-2.0.1-Windows-x86 install work. For example, I open Spyder3.4 that was installed with Anaconda, but when I open/run any of the .py files ( C:\Anaconda3\Lib\site-packages\matplotlib) nothing happens... No error message, nothing in the output tab.
I've installed this on a WinXp virtual machine that also has Qt5 creator/designer and PyQt installed. Is there any known conflict or path issues having PyQt installed alongside Anaconda?
How can I tell if Anaconda and its packages (namely pyqtgraph, matplotlib and pyqt) installed correctly?

You don't run the files in site-packages directly to use the modules. You should start a Python console in Spyder or the IPython notebook and use import matplotlib to access matplotlib.

Related

Failure importing openpyxl in Spyder 5.1.5

So I am trying to open a.xlsc file in Spyder using pandas. After importing pandas as pd, when using pd.read_excel() command in the console, it showed the error:
ImportError: Missing optional dependency 'openpyxl'. Use pip or.....
Then I installed the module with:
pip install openpyxl
successfully in CMD, but again Spyder shows the same error.
I tried to restart the kernel, close and reopen Spyder, and even restarted my machine to no avail.
Openpyxl is listed in both help ("modules") in python shell as well as in pip list in CMD.
When I tried to import the openpyxl itself in Spyder (import openpyxl)it says "Module not found error: No module named "openpyxl"."
I have only python 3 (3.9) not both 2 & 3 and Spyder is the only IDE I use with python.
I apologize if this question sounds stupid, I'm fairly new to Python.
I would appreciate any help regarding this.
Thank you.
Spyder has its own Python interpreter 3.7.9 so it loads only the modules installed for that Python.
Since I had a separate Python 3.9.7 installation, whenever I used pip via CMD it installed all the modules for the 3.9.7 Python, that's why my Python terminal & CMD were able to list openpyxl but Spyder said it isn't installed.
After ransacking through the internet I switched the Spyder interpreter to the 3.9.7 stand-alone installation by Tools > Preferences > Python interpreter > Use the following interpreter > navigate through your directory and select the stand-alone python 3.7.9 .exe. Afterwards, Spyder said "Your Python environment or installation doesn't have the spyder‑kernels module or the right version of it installed. Use pip install spyder-kernels==2.1. to install..."*. So back to CMD, I installed the spyder-kernels and now everything's fine.
Spyder IPython console shows Python 3.9.7 (Used to be 3.7.9, Spyder's own interpreter). Now I'm able to import openpyxl without any issues.
I had the same issue as Anoban, but the answer provided by Anoban didn't work for me. I was able to resolve it in two ways
1. Changing my Python environment
This is the better, quicker answer IMO. My Spyder environment was somehow using a custom Python environment as its default (see picture).
Once I changed the Python environment (Tools > Preferences> Python interpreter) from "Default" to the following path (it should have been the default Python interpreter in the first place IMO):
"C:\Users\username\miniconda3\python.exe"
...it worked (see image below to what it should look like in the IDE).
I still had to do an install of spyder-kernels=2.3 (see the next point in my post if you have trouble with that)
2. Creating a separate Python environment
I got this way to work before I figured out the method described in #1 above, so I am posting it too, since it may help someone.
I used the help provided on the Spyder website, followed the directions provided on their site exactly, and it worked for me.
FYI, my installation is slightly different than Anoban's - I didn't use pip. I installed miniconda and a stand-alone version of Spyder on my Windows machine. I used the Anaconda prompt as the terminal window, not the Windows Command Prompt.
Hope this helps someone.
update: when I changed the Python interpreter to the new environment, the Python console gave me the following error
The Python environment or installation whose interpreter is located at
C:\Users\rebecca\miniconda3\python.exe
doesn't have the spyder‑kernels module or the right version of it installed (>= 2.3.0 and < 2.4.0). Without this module is not possible for Spyder to create a console for you.
You can install it by activating your environment (if necessary) and then running in a system terminal:
conda install spyder‑kernels=2.3
But it couldn't find the correct channels for installation so I needed to use
conda -c conda-forge spyder-kernels=2.3
then it worked.
#rpinto73
I know it's tad late. I'm wondering how my answer differs from yours lol.
We faced the same issue and came up with the same solutions. The difference is you set the Python interpreter in a conda environment as default in Spyder whereas I set my standalone Python installation as default. Thus we both assigned an external Python interpreter to be used inside Spyder. Since the external interpreters we assigned (a global Python interpreter in my case (that's why I used pip) and a Python interpreter inside a conda virtual environment in your case (so you had to use conda, you could use pip inside a conda virtual environment as well but not a good practice since it could break dependencies) didn't have the spyder-kernels module we had to install it manually.
The major issue with Spyder is it is an IDE WRITTEN in Python. Thus it needs a Python interpreter to load & function; which is the reason for it being painfully slow during loading. Spyder packs some mundane data science libraries like pandas, numpy, scipy with itself, which you make use of when using Spyder's default Python interpreter. However Spyder does not allow users to manually install packages for its default interpreter (as far as I know). Which makes sense since any conflicts in dependencies introduced by users manually installing/upgrading packages might break the functionality of Spyder itself, making it dysfunctional. Thus the best solution is to leave the Spyder's interpreter to Spyder itself and use a custom Python interpreter where we can install and upgrade modules as we please!.
And a free advice, it's okay to use Spyder when you are starting out with Python as beginners, but it is useless when you have to do heavy computations. You will mostly find yourself facing memory errors. It is lightweight IDE best for learners & beginners. It's best to switch to a more general yet capable development environments like Visual Studio Code, Jupyter Lab.. or a full-fledged Python IDE like PyCharm (there is a free community edition) if you want the in-IDE variables pane & plots pane. But be warned PyCharm (generally any IDE from JetBrains) is notorious for having massive memory footprints.

Use existing python libraries in spyder

I have installed Spyder ide on my Mac machine. I already had python installed on my system and I had installed several libraries using pip install (like pandas, sklearn etc). Now when I try to import them in Spyder, they don't work. From python shell, I imported those libraries and added that path to PYTHONPATH in Spyder. But it is still not working. It seems it is searching in the /Applications/Spyder.app/Contents/Resources/ folder. But why wouldn't adding the existing python library path work? Can someone tell me what I am missing?

Failing to import pyqt5 libraries on a system where both anaconda3 and python 3.5 is installed

I'm new to python trying to figure out some basics. I installed python 3.5 and then, to use jupyter notebook I installed anaconda distrubition. After that, I installed pycharm and started learning python.
After a few weeks, I was able to create a simple project which makes use of pyqt5. My project runs when I run it from pycharm itself, but when I try to run it with "python" command from cmd I get an error, stating that import from pyqt5 has failed. I did some research, and installed pyqt5 using pip, but the problem persists.
So what should I do to run my project without anaconda, using python 3.5?
It seems the anaconda distrubution and python itself were conflicting. Whenever I tried to install a module using pip (like pyqt5), it is installed under anaconda's python so when I try to invoke my own python from console i failed to use those installed modules. Hence there seems to be two option;
Delete all python related stuff from the computer and clean install python only - no anaconda. (I did this)
Or when installing a module, try using different pip's for the two python distrubutions on our computer. Check this link: Install a module using pip for specific python version

Can't find python module [Anaconda]

I've installed the new Anaconda 5.1. Before that, I had Anaconda 4 installed on my Windows 10 computer.
However I'm only able to use the preinstalled anaconda modules like numpy, matplotlib. If I install a new module for example over pip I can't use it, because my IDE (Visual Studio Code, pyCharm or Jupyter Notebook) will not find it. If I open the python console directly, I can import any module. The IDEs use the correct python path.
I've reinstalled anaconda a few times, but without any positive result.
Anyone with the same problem have a solution?
Not sure if I understood your question on 100%, but you can try this approach:
1) Open Anaconda prompt
2) Type conda install [packagename]

Could not find or load the Qt platform plugin "xcb"

On my OS(Linux Mint Debian Edition 2), except for the system python(/usr/bin/python) installed by the apt, I also installed the anaconda. But I've encounterd a problem running the following code with the anaconda python
# test.py
import matplotlib.pyplot as plt
import numpy as np
x = np.array([0, 1])
plt.scatter(x, x)
plt.show()
The error is
This application failed to start because it could not find or load the
Qt platform plugin "xcb".
Reinstalling the application may fix this problem.
Aborted
But if I try with the system python, i.e., /usr/bin/python test.py, it works correctly.
Then I tried the ipythons, of system and of anaconda, the result is same as before: the anaconda ipython kernel died.
And I tried add the ipython magic %matplotlib inline into the code, the anaconda ipython works correctly now. But if I replace the %matplotlib inline with %pylab, the anaconda ipython died again.
Note: I use the python 2.7. System ipython's version is 2.3, anaconda ipython's version is 3.2.
To fix this problem, I added to the top:
import matplotlib
matplotlib.use('Agg')
I have a CentOS7, Anaconda3-4.5.0, python3.5
pyqt version 5.6.0 and qt version 5.6.0
If you want to use the plot in a Tkinter window for visualisation then use:
matplotlib.use('TkAgg')
Same problem with Linux Mint 17, 64 bit. It was solved after 4h searching on the net! You need to give these commands on the terminal from folder /anaconda2/bin
sudo ./conda remove qt
sudo ./conda remove pyqt
sudo ./conda install qt
sudo ./conda install pyqt
Hope it helps!
I experienced this problem on Ubuntu 16.04 with anaconda 4.3.17 (Python 2.7). The issue stemmed from anaconda having Qt version 5.6 installed, while my system Qt libraries were at version 5.5.
A quick hack is to make sure Anaconda libraries precede your system libraries by setting LD_LIBRARY_PATH:
export LD_LIBRARY_PATH=$HOME/anaconda2/lib:$LD_LIBRARY_PATH
Unfortunately, this will break other programs that use Qt 5.5, so you can only use it in situations that are 100% anaconda python, for example, if you're starting an ipython session with --pylab.
I discovered that this was the issue by looking at the way libxqcb.so was linked:
ldd $HOME/anaconda2/plugins/platforms/libqxcb.so
which reported the following errors:
./libqxcb.so: /usr/lib/x86_64-linux-gnu/libQt5XcbQpa.so.5: version `Qt_5_PRIVATE_API' not found (required by ./libqxcb.so)
./libqxcb.so: /usr/lib/x86_64-linux-gnu/libQt5Gui.so.5: version `Qt_5' not found (required by ./libqxcb.so)
./libqxcb.so: /usr/lib/x86_64-linux-gnu/libQt5Core.so.5: version `Qt_5' not found (required by ./libqxcb.so)
./libqxcb.so: /usr/lib/x86_64-linux-gnu/libQt5Core.so.5: version `Qt_5.6' not found (required by ./libqxcb.so)
The error messages are saying they can't find Qt_5.6, which is anaconda's version. The version on my system was 5.5, which I found out by looking at the filenames that resulted from this command:
ls /usr/lib/x86_64-linux-gnu/libQt*
This can also happen when using something like an ssh session to connect to for instance a piece of software that is using X11 graphical libraries as I recently discovered.
The issue occurs when trying to plot images in the graphical user interface, using:
cv2.imshow()
or
plot.show()
In this case you should either use ssh -XY or you should consider saving to a file instead such as
cv2.imwrite('file.png')
or
plt.savefig('file.png')
I had this problem when using a deep neural network that was originally geared towards being used in conjunction with Jupyter notebook. When writing the images to files instead of displays, the code the ran through multiple ssh tunnels without reporting the xcb and Qt bug.
By the way, it didn't matter what variant of Qt4 or Qt5 was installed. It still failed with the same error message.
I had to upgrade several python packages to make it work. In particular:
pip3 install --upgrade pyside2 pyqt5

Categories

Resources