Replace flake8 with ruff

[p-j-smith]

Fixes #220

Hopefully a more manageable and less destructive version of #204. Only introducing Ruff here - not prettier, and not adding support for tox 4 - this can be done in a separate pr

• remove use of flake8 and use ruff instead
• explicitly target Python 3.8 with Ruff
• set fix = false - use Ruff as a linter rather than a formatter for now. This means linting will currently fail from Ruff complaints. I'll go through each of the rules and add either fix them manually or add them to the fixable list, and check the tests still pass

Edit: I've fixed all the linting complaints and removed the fix restrictions for Ruff

[deprecated-napari-hub-preview-bot[bot]]

Preview page for your plugin is ready here: https://preview.napari-hub.org/quantumjot/btrack/224 Updated: 2023-03-13T11:37:01.975530

[p-j-smith]

I went through the fixes for each rule individually, running tests after each change, and I'm fairly certain the there are no changes to any functionality or logic.

I've ignored some rules for certain lines e.g.:

• require boolean arguments to functions to be keyword only (this would break the api for users)
• functions need to be broken up because they're too long
• functions have too many arguments

[codecov-commenter]

Codecov Report

Patch coverage: 77.63% and project coverage change: +0.27 :tada:

Comparison is base (ea0850b) 82.50% compared to head (888954d) 82.78%.

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Additional details and impacted files

```diff @@ Coverage Diff @@ ## main #224 +/- ## ========================================== + Coverage 82.50% 82.78% +0.27% ========================================== Files 19 19 Lines 1549 1545 -4 Branches 269 262 -7 ========================================== + Hits 1278 1279 +1 + Misses 194 191 -3 + Partials 77 75 -2 ``` | [Impacted Files](https://codecov.io/gh/quantumjot/btrack/pull/224?src=pr&el=tree&utm_medium=referral&utm_source=github&utm_content=comment&utm_campaign=pr+comments&utm_term=Alan+R+Lowe) | Coverage Δ | | |---|---|---| | [btrack/io/exporters.py](https://codecov.io/gh/quantumjot/btrack/pull/224?src=pr&el=tree&utm_medium=referral&utm_source=github&utm_content=comment&utm_campaign=pr+comments&utm_term=Alan+R+Lowe#diff-YnRyYWNrL2lvL2V4cG9ydGVycy5weQ==) | `72.22% <33.33%> (ø)` | | | [btrack/libwrapper.py](https://codecov.io/gh/quantumjot/btrack/pull/224?src=pr&el=tree&utm_medium=referral&utm_source=github&utm_content=comment&utm_campaign=pr+comments&utm_term=Alan+R+Lowe#diff-YnRyYWNrL2xpYndyYXBwZXIucHk=) | `96.07% <33.33%> (ø)` | | | [btrack/optimise/optimiser.py](https://codecov.io/gh/quantumjot/btrack/pull/224?src=pr&el=tree&utm_medium=referral&utm_source=github&utm_content=comment&utm_campaign=pr+comments&utm_term=Alan+R+Lowe#diff-YnRyYWNrL29wdGltaXNlL29wdGltaXNlci5weQ==) | `79.06% <63.63%> (ø)` | | | [btrack/io/hdf.py](https://codecov.io/gh/quantumjot/btrack/pull/224?src=pr&el=tree&utm_medium=referral&utm_source=github&utm_content=comment&utm_campaign=pr+comments&utm_term=Alan+R+Lowe#diff-YnRyYWNrL2lvL2hkZi5weQ==) | `72.79% <73.33%> (ø)` | | | [btrack/utils.py](https://codecov.io/gh/quantumjot/btrack/pull/224?src=pr&el=tree&utm_medium=referral&utm_source=github&utm_content=comment&utm_campaign=pr+comments&utm_term=Alan+R+Lowe#diff-YnRyYWNrL3V0aWxzLnB5) | `83.18% <80.00%> (+1.93%)` | :arrow_up: | | [btrack/btypes.py](https://codecov.io/gh/quantumjot/btrack/pull/224?src=pr&el=tree&utm_medium=referral&utm_source=github&utm_content=comment&utm_campaign=pr+comments&utm_term=Alan+R+Lowe#diff-YnRyYWNrL2J0eXBlcy5weQ==) | `81.64% <85.71%> (+0.78%)` | :arrow_up: | | [btrack/io/utils.py](https://codecov.io/gh/quantumjot/btrack/pull/224?src=pr&el=tree&utm_medium=referral&utm_source=github&utm_content=comment&utm_campaign=pr+comments&utm_term=Alan+R+Lowe#diff-YnRyYWNrL2lvL3V0aWxzLnB5) | `88.37% <85.71%> (+2.32%)` | :arrow_up: | | [btrack/core.py](https://codecov.io/gh/quantumjot/btrack/pull/224?src=pr&el=tree&utm_medium=referral&utm_source=github&utm_content=comment&utm_campaign=pr+comments&utm_term=Alan+R+Lowe#diff-YnRyYWNrL2NvcmUucHk=) | `82.80% <88.88%> (-0.16%)` | :arrow_down: | | [btrack/\_\_init\_\_.py](https://codecov.io/gh/quantumjot/btrack/pull/224?src=pr&el=tree&utm_medium=referral&utm_source=github&utm_content=comment&utm_campaign=pr+comments&utm_term=Alan+R+Lowe#diff-YnRyYWNrL19faW5pdF9fLnB5) | `90.00% <100.00%> (ø)` | | | [btrack/io/\_\_init\_\_.py](https://codecov.io/gh/quantumjot/btrack/pull/224?src=pr&el=tree&utm_medium=referral&utm_source=github&utm_content=comment&utm_campaign=pr+comments&utm_term=Alan+R+Lowe#diff-YnRyYWNrL2lvL19faW5pdF9fLnB5) | `100.00% <100.00%> (ø)` | | | ... and [3 more](https://codecov.io/gh/quantumjot/btrack/pull/224?src=pr&el=tree-more&utm_medium=referral&utm_source=github&utm_content=comment&utm_campaign=pr+comments&utm_term=Alan+R+Lowe) | | Help us with your feedback. Take ten seconds to tell us [how you rate us](https://about.codecov.io/nps?utm_medium=referral&utm_source=github&utm_content=comment&utm_campaign=pr+comments&utm_term=Alan+R+Lowe). Have a feature suggestion? [Share it here.](https://app.codecov.io/gh/feedback/?utm_medium=referral&utm_source=github&utm_content=comment&utm_campaign=pr+comments&utm_term=Alan+R+Lowe)

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[p-j-smith]

I had to change the way the year is determined in the docs setup because ruff wasn't happy:

docs/conf.py:25:21: DTZ011 The use of `datetime.date.today()` is not allowed, use `datetime.datetime.now(tz=).date()` instead

[paddyroddy]

Looks like you've committed .hypothesis/unicode_data/13.0.0/charmap.json.gz!

[p-j-smith]

Looks like you've committed .hypothesis/unicode_data/13.0.0/charmap.json.gz!

woops! I'll remove

[paddyroddy]

I assume the codecov thing isn't an issue?

[p-j-smith]

I assume the codecov thing isn't an issue?

I guess not, maybe it's because the formatting split some untested code across multiple lines, so now there are more untested lines?