Drop Python 3.8 support

[rjgildea]

Upstream dependencies (e.g. numpy, scipy) have now dropped Python 3.8 support in latest releases.

Add Python 3.11 support.

See also https://dials.github.io/kb/proposals/dc3

[codecov]

Codecov Report

Merging #642 (652b524) into main (71d4ec0) will decrease coverage by 0.01%.
The diff coverage is n/a.

❗ Current head 652b524 differs from pull request most recent head f42b51b. Consider uploading reports for the commit f42b51b to get more accurate results

Additional details and impacted files

@@            Coverage Diff             @@
##             main     #642      +/-   ##
==========================================
- Coverage   39.39%   39.39%   -0.01%     
==========================================
  Files         178      178              
  Lines       15496    15519      +23     
  Branches     2613     2996     +383     
==========================================
+ Hits         6104     6113       +9     
+ Misses       8832     8827       -5     
- Partials      560      579      +19     

[ndevenish]

This also seems to have the numpy warning issues, but not in a way that fails tests.

The only thing I'm unsure of is if it is worth doubling up the testing to both 3.9 and 3.11, but I guess all of the builds take less time than one DIALS build, so not too much of a problem.

[rjgildea]

This also seems to have the numpy warning issues, but not in a way that fails tests.

We run pytest with PYTHONDEVMODE=1 which means we see DeprecationWarnings in the output, but that alone doesn’t cause tests to fail. Tests that call subprocess.run typically check for empty stderr which is what is causing the tests to fail. We could add filterwarnings in pytest.ini but that wouldn’t propagate to subprocesses.

[rjgildea]

The only thing I'm unsure of is if it is worth doubling up the testing to both 3.9 and 3.11, but I guess all of the builds take less time than one DIALS build, so not too much of a problem.

Linux and Mac is already built/tested on 3.9 (as of this PR) and 3.11. Windows isn’t built for 3.11, but perhaps we should add that to for completeness?

[ndevenish]

Ah, yes I missed that it was just updating the two. Yeah, probably makes sense to do windows too - it was probably a legacy "windows build is complicated" reason not to