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The latest timeouts don't seem to be caused by a simple infinite loop. It's just that many files now take a lot longer than they used to. For example here is what's running right now:
nawrocki 3359171 100 2.2 880888 745396 ? R 18:19 74:21 /home/lean/actions-runner/_work/mathport/mathport/build/bin/mathport config.json Mathbin::data.analysis.filter
nawrocki 3359253 100 2.4 953668 805644 ? R 18:24 69:35 /home/lean/actions-runner/_work/mathport/mathport/build/bin/mathport config.json Mathbin::category_theory.sites.pretopology
nawrocki 3359429 100 2.2 890620 747472 ? R 18:38 55:47 /home/lean/actions-runner/_work/mathport/mathport/build/bin/mathport config.json Mathbin::data.set.semiring
nawrocki 3360243 100 2.4 937048 796800 ? R 19:10 23:43 /home/lean/actions-runner/_work/mathport/mathport/build/bin/mathport config.json Mathbin::group_theory.subgroup.basic
nawrocki 3360548 100 2.2 893600 755460 ? R 19:29 4:35 /home/lean/actions-runner/_work/mathport/mathport/build/bin/mathport config.json Mathbin::order.pfilter
nawrocki 3360575 100 2.4 939660 794580 ? R 19:31 3:03 /home/lean/actions-runner/_work/mathport/mathport/build/bin/mathport config.json Mathbin::topology.sets.closeds
nawrocki 3360604 100 2.7 1063676 913580 ? R 19:31 2:58 /home/lean/actions-runner/_work/mathport/mathport/build/bin/mathport config.json Mathbin::topology.sheaves.presheaf
nawrocki 3360636 100 2.4 950564 799544 ? R 19:32 1:39 /home/lean/actions-runner/_work/mathport/mathport/build/bin/mathport config.json Mathbin::geometry.manifold.charted_space
data.analysis.filter has been running for 75 minutes and is not finished yet, but I think it will finish at some point. To compare, topology.local_homeomorph was running for 20 minutes but finished then.
This seems to be due to a mathlib change between August 23 (successful build) and August 25 (first timeout). As far as I can tell, nothing changed on the mathport end.
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