mypy ver 1.11+ multiple errors

[shachafl]

Description

mypy version 1.11 and higher introduced new errors that need to be resolved before loosening the version constraint in the requirements file: requirements/REQUIREMENTS-CI.txt.in

Steps/Code to Reproduce

pip install -U mypy
make mypy

Expected Results

mypy --ignore-missing-imports starfish examples/data_formatting_examples/format*
starfish/core/util/logging.py:18: note: By default the bodies of untyped functions are not checked, consider using --check-untyped-defs  [annotation-unchecked]
...

Actual Results

mypy --ignore-missing-imports starfish examples/data_formatting_examples/format*
starfish/core/util/logging.py:18: note: By default the bodies of untyped functions are not checked, consider using --check-untyped-defs  [annotation-unchecked]
starfish/core/spots/DecodeSpots/check_all_funcs.py:493: error: Item "dict[Hashable, Codebook]" of "Codebook | dict[Hashable, Codebook]" has no attribute "data"  [union-attr]
starfish/core/spots/DecodeSpots/check_all_funcs.py:494: error: Item "dict[Hashable, Codebook]" of "Codebook | dict[Hashable, Codebook]" has no attribute "data"  [union-attr]
starfish/core/spots/DecodeSpots/check_all_funcs.py:495: error: Item "dict[Hashable, Codebook]" of "Codebook | dict[Hashable, Codebook]" has no attribute "data"  [union-attr]
starfish/core/spots/FindSpots/trackpy_local_max_peak_finder.py:180: error: Too many arguments for "image_to_spots" of "TrackpyLocalMaxPeakFinder"  [call-arg]
starfish/core/spots/FindSpots/blob.py:229: error: Too many arguments for "image_to_spots" of "BlobDetector"  [call-arg]
starfish/core/image/Filter/mean_high_pass.py:121: error: Argument "size" to "_high_pass" of "MeanHighPass" has incompatible type "tuple[int | float, ...]"; expected "int | float"  [arg-type]
starfish/core/image/Filter/match_histograms.py:111: error: Argument "reference" to "_match_histograms" of "MatchHistograms" has incompatible type "DataArray"; expected "ndarray[Any, Any]"  [arg-type]
starfish/core/image/Filter/laplace.py:129: error: Argument "sigma" to "_gaussian_laplace" of "Laplace" has incompatible type "tuple[int | float, ...]"; expected "int | float | tuple[int | float]"  [arg-type]
starfish/core/image/Filter/gaussian_low_pass.py:122: error: Argument "sigma" to "_low_pass" of "GaussianLowPass" has incompatible type "tuple[int | float, ...]"; expected "int | float | tuple[int | float]"  [arg-type]
starfish/core/image/Filter/gaussian_high_pass.py:121: error: Argument "sigma" to "_high_pass" of "GaussianHighPass" has incompatible type "tuple[int | float, ...]"; expected "int | float | tuple[int | float]"  [arg-type]