Cookiecutter updates via Cruft

[Zeitsperre]

Changes

• Updates the boilerplate to the latest commit via cruft.
• Several workflows have been added to make use of GitHub CI.
• Issue templates have been added for better issue management.
• Main testing workflow and tests have been adapted to run smoke tests.
• Python3.7 has been dropped everywhere.
• A Zenodo configuration has been added.
• Two sphinx extensions have been added: sphinx-codeautolink, sphinx-copybutton
• More badges!

If there is anything that you would like to revise/remove, please feel free to suggest changes. This is coming from a (pseudo-)automated process based on a template of my design. General comments welcome.

[juliettelavoie]

Tried to run makedocs on this branch and it failed with error:
Extension error (sphinx_codeautolink.extension): Handler <bound method SphinxCodeAutoLink.create_references of <sphinx_codeautolink.extension.SphinxCodeAutoLink object at 0x1859c0700>> for event 'env-updated' threw an exception (exception: initialization of _internal failed without raising an exception)

based on https://stackoverflow.com/questions/75190844/how-to-resolve-systemerror-initialization-of-internal-failed-without-raising-a I downgraded to numpy 1.23.1 and it worked. Maybe we should pin it in the env.yml ? or do you know another way to fix it ?

[Zeitsperre]

based on https://stackoverflow.com/questions/75190844/how-to-resolve-systemerror-initialization-of-internal-failed-without-raising-a I downgraded to numpy 1.23.1 and it worked. Maybe we should pin it in the env.yml ? or do you know another way to fix it ?

Looks like an issue with Python3.11 and sphinx-codeautolink. Might be worth opening an issue there: https://github.com/felix-hilden/sphinx-codeautolink/issues.

It's odd since the error isn't found in the ReadTheDocs logs using the newest numpy (v1.24.3) and numba (v0.57). Could it be related to your dependencies?

[juliettelavoie]

this was in an env python 3.9 with numba '0.53.0'. Maybe I could have updated numba instead of downgrading numpy. If RtD can build with no issue, than I guess it is okay.

[Zeitsperre]

This looks good. There might be a handful of small fixes to come in the next week or so (I've been updating the template pretty actively), but this is good for now!

[juliettelavoie]

just FYI, mamba install -c conda-forge gdal was also necessary before the pip install on my mac

[Zeitsperre]

This is good to merge once tests pass!

[Zeitsperre]

Forgot to update the CHANGES, so I'll add when we prepare the release!

[juliettelavoie]

je ferais un release maintenant demain , comme on a changé des choses dans le setup, si on veut que l'installation avec pip fonctionne. @sarahclaude le moment de tester tes nouvelles connaissances de release ? :P

[Zeitsperre]

Parfait, il me reste une dernière chose à changer (un dernier bug, j'espère), mais je voudrais que l'on fasse ça ensemble. Les releases après ça seront semi-automatiques !