1

I already referred to this related post

Currently am using Jupyter Notebook which has Python2 kernel only. But my server has both Python2 and Python3.

However, I would like to add python3 kernel. By following the above post, I tried the below

1 !mkdir python-virtual-environments && cd python-virtual-environments && virtualenv env && virtualenv -p python3 env && . env/bin/activate   #activated virtual environment
2 !jupyter kernelspec list  #lists only Python2 kernel  
3 !which python3 # outputs the python3 path `/usr/bin/python3`
4 !pip install ipykernel  # stream of requirement already satisfied messages
5 !python3 -m pip install ipykernel  # error-1
6 !python3 -m ipykernel install --user # error-2

I get the below errors

error-1

Exception:
Traceback (most recent call last):
  File "/usr/lib/python3.5/shutil.py", line 538, in move
    os.rename(src, real_dst)
PermissionError: [Errno 13] Permission denied: '/usr/lib/python3/dist-packages/prompt_toolkit' -> '/tmp/pip-rgd7fgjj-uninstall/usr/lib/python3/dist-packages/prompt_toolkit
.....
PermissionError: [Errno 13] Permission denied: 'toolbars.py'

error-2

PermissionError: [Errno 13] Permission denied: '/usr/local/lib/python3.5/dist-packages/tornado-6.0.4.dist-info'
You are using pip version 9.0.1, however version 20.1.1 is available.
You should consider upgrading via the 'pip install --upgrade pip' command.
/usr/bin/python3: No module named ipykernel

Questions

  1. When I activate the virtualenv, all the commands that I execute after activation (line 2,3,4,5,6) are being run in my virtual env. Am I right?

  2. line 4 has a stream of requirement already satisified messages. Am trying to install ipykernel in my virtual environment. Why does it say it's already satisfied. Is it looking at my system installation because the message has python2.7.2?

  3. Line 5, Why do I get permission denied error?

The Great
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1 Answers1

1

The problem is that you're running everything from jupyter notebook using ! which starts a temporary shell for every command, thus all your commands are executed in a different shell. Hence, virtualenv is not activated, and you're getting requirements satisfied when you use pip as it's checking system's python.

You need to use the terminal to activate virtual environement (though it can be done using jupyter, but a bit cumbersome):

From the terminal, first activate your virtualenv (which whould have python 3 as you mentioned it when you created this env (virtualenv -p python3 env)):

. python-virtual-environments/env/bin/activate

It should show something like this (env) $ when activated, then if you check python and pip, it should give your env's python and pip.

(env) $  which python
home/abcd/python-virtual-environments/env/bin/python
(env) $  which pip
/home/abcd/python-virtual-environments/env/bin/pip

Now, you can install kernel if it's not already installed:

(env) ➜ pip install ipykernel
kHarshit
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  • But may I check `virtualenv -p python3 env` where should we use this? – The Great Jun 22 '20 at 14:45
  • You don't need to use this anymore, you used it earlier when you installed virtualenv. – kHarshit Jun 22 '20 at 14:46
  • Nice, It means your env is activated now. You can install packages in it and launch jupyter from there. – kHarshit Jun 22 '20 at 14:46
  • Or it is showing the path of jupyter notebook? All my installations and packages only will only go to `virtual env` provided in code above. Am I right? – The Great Jun 22 '20 at 14:55
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    yeah, pwd is showing the path of where your notebook is stored, Yes, all your installations will now go in env. in fact, you can check `which jupyter` will show jupyter path inside of env. – kHarshit Jun 22 '20 at 14:58
  • Let us [continue this discussion in chat](https://chat.stackoverflow.com/rooms/216441/discussion-between-the-great-and-kharshit). – The Great Jun 22 '20 at 14:59
  • can help with this please? https://stackoverflow.com/questions/63590428/setting-the-path-for-pyenv – The Great Aug 26 '20 at 04:19