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MRG: refactor `calculate_gather_stats` to disallow repeated downsampling #5741

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Run time

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Job	Run time
pixi (ubuntu-latest)	9m 20s
pixi (macos-14)	7m 19s
mamba (ubuntu-latest)	9m 54s
nix (ubuntu-latest)	18m 42s
mamba (macos-14)	7m 40s
nix (macos-14)	14m 38s
	1h 7m 33s