Google Colab fails to install PyBaMM

[brosaplanella]

Discussed in #2521

Google Colab has updated to Python 3.8 but now fails to install PyBaMM due to pybtex.

^{Originally posted by reenubosepybamm December 5, 2022}
%pip install pybamm -q # install PyBaMM if it is not installed
import pybamm
import numpy as np
import matplotlib.pyplot as plt
GIVING AN ERROR
PluginNotFound Traceback (most recent call last)
in
2 get_ipython().run_line_magic('pip', 'install pybamm --no-cache -q')
3 get_ipython().run_line_magic('pip', 'install pybamm -q # install PyBaMM if it is not installed')
----> 4 import pybamm
5 import numpy as np
6 import matplotlib.pyplot as plt

6 frames
/usr/local/lib/python3.8/dist-packages/pybtex/plugin/init.py in _load_entry_point(group, name, use_aliases)
79 for entry_point in pkg_resources.iter_entry_points(search_group, name):
80 return entry_point.load()
---> 81 raise PluginNotFound(group, name)
82
83

PluginNotFound: plugin pybtex.database.input.bibtex not found

[Saransh-cpp]

This is a known pybtex issue, but till now, it was only affecting the pybamm.print_citations statements (seeing the error on import is new for me).

Reported last year here - pybamm-team/BattBot#47
Reported in pybtex here - https://bitbucket.org/pybtex-devs/pybtex/issues/148/error-pluginnotfound-plugin (I did not follow up. I will post a follow-up comment there.)

The error comes from -

PyBaMM/pybamm/citations.py

Line 149 in c17756f

citations = Citations()

because the __init__ method has -

PyBaMM/pybamm/citations.py

Lines 38 to 39 in c17756f

	self.read_citations()
	self._reset()

Maybe we can execute these lines only when a user is not on Colab and throw a warning about citations when a user is on Colab (till this issue is fixed).

[valentinsulzer]

Thanks @Saransh-cpp , sounds like a good workaround

[reenubosepybamm]

currently i am working in pybamm i,should i wait for the the bug to be cleared.or should i go to comsol

[Saransh-cpp]

@reenubosepybamm you should be able to install PyBaMM's latest version in your local environment (not Google Colab) without any issues.

This issue has also been fixed and you can install the develop version of PyBaMM on Google Colab (till the time a new release is made) -

pip install git+https://github.com/pybamm-team/PyBaMM@develop

instead of -

pip install pybamm

[renatorod]

I have been using PyBaMM for most of 2022 with no issues, but since Google Colab was updated to Python 3.8, I have not been able to run any simulations.

I have tried the following fixes to no avail:

1. Installed PyBaMM on Colab with pip install git+https://github.com/pybamm-team/PyBaMM@develop as suggested by @Saransh-cpp

• Allows installing/importing pybamm, but throws an error when defining the model or the parameter_values
• model = pybamm.lithium_ion.DFN(options={"thermal":"lumped"}) or parameter_values = pybamm.ParameterValues('Chen2020')
• Error1: KeyError: 'Not a bibtex citation or known citation: Ai2019'
• Error2: KeyError: 'Not a bibtex citation or known citation: Chen2020'

2. Attempted installation on my local environment (desktop) with pip install pybamm

• Throws an ERROR during installation
• ERROR: PluginNotFound: plugin pybtex.database.input.bibtex not found

3. Installed PyBaMM on my local environment (desktop) with pip install git+https://github.com/pybamm-team/PyBaMM@develop

• Allows installation but throws an ERROR during import pybamm
• ERROR: PluginNotFound: plugin pybtex.database.input.bibtex not found

Any other suggestions?