Error: `PluginNotFound: plugin pybtex.database.input.bibtex not found` when using pybtex on `Google Colab`

[Saransh Chopra]

Running the following lines on Google Colab gives an error but running the same lines locally with the same version of pybtex gives no error.

Script

%pip show pybtex
import pybtex
citations = pybtex.format_from_file(
                "./book.bib",
                "plain"
            )
citations

Error

Name: pybtex
Version: 0.24.0
Summary: A BibTeX-compatible bibliography processor in Python
Home-page: https://pybtex.org/
Author: Andrey Golovizin
Author-email: [e-mail]
License: MIT
Location: /usr/local/lib/python3.7/dist-packages
Requires: six, latexcodec, PyYAML
Required-by: pybamm
---------------------------------------------------------------------------
PluginNotFound                            Traceback (most recent call last)
<ipython-input-30-a0a7db8f2057> in <module>()
      3 citations = pybtex.format_from_file(
      4                 "./book.bib",
----> 5                 "plain"
      6             )
      7 citations

4 frames
/usr/local/lib/python3.7/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

Full trace

---------------------------------------------------------------------------
PluginNotFound                            Traceback (most recent call last)
<ipython-input-30-a0a7db8f2057> in <module>()
      3 citations = pybtex.format_from_file(
      4                 "./book.bib",
----> 5                 "plain"
      6             )
      7 citations

4 frames
/usr/local/lib/python3.7/dist-packages/pybtex/__init__.py in format_from_file(*args, **kwargs)
    180 def format_from_file(*args, **kwargs):
    181     """A convenience function that calls :py:meth:`.PybtexEngine.format_from_file`."""
--> 182     return PybtexEngine().format_from_file(*args, **kwargs)
    183 
    184 

/usr/local/lib/python3.7/dist-packages/pybtex/__init__.py in format_from_file(self, filename, *args, **kwargs)
     90         :py:meth:`~.Engine.format_from_files`.
     91         """
---> 92         return self.format_from_files([filename], *args, **kwargs)
     93 
     94     def format_from_files(*args, **kwargs):

/usr/local/lib/python3.7/dist-packages/pybtex/__init__.py in format_from_files(self, bib_files_or_filenames, style, citations, bib_format, bib_encoding, output_backend, output_encoding, min_crossrefs, output_filename, add_output_suffix, **kwargs)
    147         from pybtex.plugin import find_plugin
    148 
--> 149         bib_parser = find_plugin('pybtex.database.input', bib_format)
    150         bib_data = bib_parser(
    151             encoding=bib_encoding,

/usr/local/lib/python3.7/dist-packages/pybtex/plugin/__init__.py in find_plugin(plugin_group, name, filename)
    109         return _load_entry_point(plugin_group + '.suffixes', suffix)
    110     else:
--> 111         return _load_entry_point(plugin_group, _DEFAULT_PLUGINS[plugin_group])
    112 
    113 

/usr/local/lib/python3.7/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

‌

[Matthias Troffaes]

One scenario where I’ve seen similar errors (PluginNotFound) is when the entry points are not installed, for whatever reason. Is it possible to install pybtex on Google Colab by running !pip install pybtex? This seems to be documented here: https://colab.research.google.com/notebooks/snippets/importing_libraries.ipynb Bear in mind I know nothing about Google Colab, so my apologies if you’re already doing that and it didn’t work.

[Maximilian Balluff]

Hi, I run into the same issue, using the to_string() method in a local Jupyter notebook. It works if I run the same code from the console or a script.

[Saransh Chopra]

Apologies for not following up. Thank you for your response, @mcmtroffaes, but this still does not work.

I tried installing pybtex explicitly, but the error persists. Here is where this error was reported again - https://github.com/pybamm-team/PyBaMM/issues/2524 - if it helps.

[Da Whoever]

I might have a related issue: When running python -m doctest pybtex/richtext.py on a fresh repository clone, many tests fail with

pybtex.plugin.PluginNotFound: plugin pybtex.backends.latex not found

Any ideas if this is related? (Or any advice on how to run the doctests?)

[Ethan Trewhitt]

I ran into this issue in Jupyter by installing pybtex after starting my Python kernel. Whatever the cause, restarting the kernel after pybtex installation fixed the issue for me.