Setup CI

[mmore500]

Replacement PR for #156

TODO:

• [x] setup GH actions testing job
• [x] setup GH actions deploy job
• [x] fix broken tests
• [x] triage failing examples
• [x] add bumpver config
• [x] add developer documentation #161

[mmore500]

In order for deployment-from-CI to work, we will need to get a PyPi API token and store it as a GitHub secret associated with this repository. Here are instructions for how to do that:

• https://www.seanh.cc/2022/05/21/publishing-python-packages-from-github-actions/#create-a-pypi-api-token
• https://www.seanh.cc/2022/05/21/publishing-python-packages-from-github-actions/#add-the-pypi-api-token-to-the-github-projects-secrets

[mmore500]

Looks like this is ready to review! The big changes were

1. configuring .github/workflows/ci.yaml to set up CI (see example CI run here: https://github.com/jeetsukumaran/DendroPy/actions/runs/4590910247)
2. setting up bumpver integration to streamline the version bump/release process (i.e., bumpver.toml)
3. reverting __version__ to the last version published on PyPi
   • it looks like a calendaring scheme was being used for the minor version?
   • it would be easy to reconfigure bumpver to use this scheme if we want to stick with it
4. adding a developer guide to docs with instructions on how lint, test, release, etc.
5. some diffuse cleanup work to get the linter and unit tests passing
   • ideally, these shouldn't be changing the behavior of anything that already worked
   • it would definitely be worth a second eye on these as I'm still learning my way around the project

I figure after this gets integrated we might bump and release a new minor version (4.6.0) on the main branch. All that we'll need in order to do that is to configure the PYPI_API_TOKEN secret for the repository (see notes above).

[codecov-commenter]

Codecov Report

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@@           Coverage Diff           @@
##             main     #157   +/-   ##
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  Coverage        ?   60.75%           
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  Lines           ?    18646           
  Branches        ?        0           
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  Hits            ?    11329           
  Misses          ?     7317           
  Partials        ?        0           

Flag	Coverage Δ
unittests	60.75% <0.00%> (?)

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