Add various cleanup

[ppinchuk]

Add some cleanup, mainly around tests and warnings. Due to dep upgrades, support for python 3.11 has been dropped.

[Copilot]

Pull request overview

Note

Copilot was unable to run its full agentic suite in this review.

This PR focuses on reducing noisy warnings and improving geospatial/parallel-processing hygiene by tightening tests, centralizing coordinate transforms, and ensuring resources (notably Dask clients) are cleaned up.

Changes:

• Updated unit tests to explicitly assert and/or capture expected warnings and to make CRS handling more explicit in test fixtures.
• Introduced/expanded shared CRS/coordinate transformation helpers (transform_xy, _safe_to_crs, _geometry_centroids) and applied them across utilities/routing.
• Ensured Dask Client lifecycles are closed via try/finally, and updated dependency pins in pyproject.toml.

Reviewed changes

Copilot reviewed 16 out of 17 changed files in this pull request and generated 2 comments.

Show a summary per file

File	Description
tests/python/unit/utilities/test_utilities_handlers.py	Uses sizes instead of dims for more robust dataset shape comparison.
tests/python/unit/test_warn.py	Ensures warnings are asserted with pytest.warns.
tests/python/unit/routing/test_routing_base.py	Wraps routing calls with pytest.warns to make warning expectations explicit.
tests/python/unit/routing/cli/test_routing_cli_point_to_point.py	Adds explicit CRS to GeoDataFrame fixture.
tests/python/unit/routing/cli/test_routing_cli_build_route_table.py	Captures expected out-of-domain warnings.
tests/python/unit/costs/test_costs_layer_creator.py	Captures expected binning “gap detected” warnings; adjusts test raster origin.
tests/python/unit/costs/test_costs_cli.py	Captures expected dry-mask warning during CLI layer building.
revrt/utilities/handlers.py	Replaces direct pyproj.Transformer usage with shared transform_xy.
revrt/utilities/cli.py	Adds CRS-safe helpers and uses shared transforms to reduce GeoPandas warnings.
revrt/utilities/base.py	Adds transform_xy and improves region_mapper distance handling in geographic CRS.
revrt/spatial_characterization/stats.py	Avoids recomputing the raster mask expression by reusing a valid_mask.
revrt/spatial_characterization/cli.py	Closes Dask client reliably via try/finally; disables dashboard.
revrt/routing/utilities.py	Uses shared CRS transforms and avoids centroid-related warnings/overhead.
revrt/routing/cli/finalize.py	Refactors CSV chunk reading loop (introduces a potential issue).
revrt/costs/cli.py	Refactors layered-file creation and ensures Dask client cleanup.
pyproject.toml	Updates dependency minimum versions and pixi feature pins.

[codecov-commenter]

Codecov Report

❌ Patch coverage is 89.36170% with 10 lines in your changes missing coverage. Please review.
✅ Project coverage is 97.26%. Comparing base (1e2bcf1) to head (ffabfb1).

Files with missing lines	Patch %	Lines
revrt/spatial_characterization/cli.py	0.00%	6 Missing ⚠️
revrt/routing/cli/finalize.py	83.33%	1 Missing and 1 partial ⚠️
revrt/utilities/cli.py	92.85%	1 Missing and 1 partial ⚠️

❌ Your patch status has failed because the patch coverage (89.36%) is below the target coverage (93.00%). You can increase the patch coverage or adjust the target coverage.

Additional details and impacted files

@@            Coverage Diff             @@
##             main     #262      +/-   ##
==========================================
- Coverage   98.64%   97.26%   -1.38%     
==========================================
  Files          26       26              
  Lines        2878     2927      +49     
  Branches      333      340       +7     
==========================================
+ Hits         2839     2847       +8     
- Misses         25       59      +34     
- Partials       14       21       +7     

Flag	Coverage Δ
unittests	97.26% <89.36%> (-1.38%)	⬇️

Flags with carried forward coverage won't be shown. Click here to find out more.

☔ View full report in Codecov by Sentry.
📢 Have feedback on the report? Share it here.

🚀 New features to boost your workflow:

• ❄️ Test Analytics: Detect flaky tests, report on failures, and find test suite problems.