keep-workflows-enabled: prevent overlap with scheduled workflows

[joverlee521]

Context

Currently scheduled to run on 1st of each month at 8AM PST/9AM PDT:

.github/.github/workflows/keep-workflows-enabled.yaml

Lines 9 to 12 in b3274f4

	on:
	schedule:
	# Scheduled to run at 4pm UTC (8am PST) on the first day of the month
	- cron: '0 16 1 * *'

If this overlaps with a workflow schedule, it may prevent the workflow from running. keep-workflows-enabled disables the workflow for 5 seconds and if GH tries to schedule the workflow during that time, then it will not run. This is mostly not an issue if we miss one day and the workflow is scheduled to run daily. However, if the stars align and this happens to a weekly pathogen workflow, then the pathogen will not get updated for 2 weeks.

For example, the chikv workflow is scheduled at the same time and did not run as scheduled on 2026-09-01. I've manually triggered chikv, but we could consider how to prevent keep-workflows-enabled overlapping with the scheduled workflows.

Possible solutions

The easiest solution would be to schedule keep-workflows-enabled for 1AM PST/2AM PDT which is less likely to overlap with other schedules. There could be other fancy ways to query scheduled workflow times but probably not worth the effort here.

[victorlin]

😯 is this the cause of nextstrain/status#52?

+1 for changing the scheduled time to prevent overlap. We could schedule this one in the middle of an hour and stick with top-of-hour for the other workflows.

[joverlee521]

is this the cause of nextstrain/status#52?

Ah, these are separate issues. The status issue is the GH API query not returning all of the workflows that have already run. This is preventing future workflows from being accidentally skipped.