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Updating the stone version to 3.3.9 #405

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Run time

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Job	Run time
Docs	2m 10s
CI (macos-latest, 3.9)	57s
CI (macos-latest, 3.11)	17s
CI (macos-15-intel, 3.9)	41s
CI (macos-latest, 3.10)	35s
CI (macos-15-intel, 3.10)	29s
Integration (macos-latest, 3.9)	1m 9s
CI (ubuntu-latest, 3.9)	35s
CI (ubuntu-latest, 3.10)	23s
CI (windows-latest, 3.10)	53s
Integration (ubuntu-latest, 3.11)	52s
CI (windows-latest, 3.9)	1m 0s
CI (windows-latest, 3.11)	1m 7s
Integration (macos-latest, 3.11)	35s
Integration (windows-latest, 3.11)	1m 21s
CI (macos-15-intel, 3.11)	31s
Integration (macos-15-intel, 3.9)	1m 0s
Integration (windows-latest, 3.10)	1m 13s
Integration (windows-latest, 3.9)	1m 16s
Integration (ubuntu-latest, 3.10)	44s
CI (ubuntu-latest, 3.11)	24s
Integration (ubuntu-latest, 3.9)	48s
Integration (macos-latest, 3.10)	1m 2s
Integration (macos-15-intel, 3.10)	52s
Integration (macos-15-intel, 3.11)	1m 22s
	22m 16s