Case studies

tskit

tskit

• I created an issue to add type-annotation.
• Sent a pull-request.
  • Add mypy to pre-commit
  • Add mypy to GitHub Actions.
  • Add .mypy.ini excluding all the current errors.

It was rejected based on a decision made in 2020.

I should have searched for this more, before putting in the work.

biopython

biopython

It already had type-annotation in some places and mypy enabled in the pre-commit and in the CI.

• PR to add type annotations to Bio/Seq.py
• PR to add type annotations to Bio/File.py

pyranges

pyranges

There is alread an issue from 2023 and a corresponding pull-request.

I asked on the issue if they would be interested in smaller PRs. Apparently a new code-base is being developed at pyranges_1.x.

anndata

anndata

I found some type-annotation, but no use of mypy.

• Opened an issue to add mypy and type-annotation.
• Created a pull-request.

linkchecker

I found no type annotation in the linkchecker project.

• Opened an issue to add mypy and type-annotation
• Created a pull-request to setup mypy in the CI and add configuration file.

veusz

I found no type-annotation in the veusz project.

• Opened an issue to add mypy to the CI and add type-annotation

• Created a pull-request

• mypy was complaining about some missing type stubs. So I installed h5py-stubs. That made mypy complain about other things that lead me opening an issue about the try/except block around import h5py which might be a left-over from early development when h5py was not a hard requirement of the project.

• I have another branch from which I am going to send a PR once the first one is accepted.