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Fixes#1026
In the PyProject.toml file there is a list of glob statements which
tells MyPy which files is should lint.
There was a mistake however that caused MyPy to only lint the top level
files of a folder.
This has been fixes in this commit.
Due to more files being analysed by MyPy there were some new issues
found
Those issues are fixed in this commit as well
I tried to make the reviewing process easier by grouping related changes
to the same commit.
# Checklist
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- [x] Links to correct issue
- [ ] Update changelog, if changes affect users
- [x] PR title starts with ``Issue #nr``, e.g. ``Issue #737``
- [ ] Unit tests were added
- [ ] **If feature added**: Added/extended example
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