docs: persistence and config changes become one operator page
The operator parts of the persistence and config-changes pages merge into agents/persistence.md. The sqlite tables, state dirs, mounts and migrations move to 4-implementation/agent-state/persistence.md, and the deploy path, meta flake, deploy markers, startup migrations, root container, system messages and autoupdate move to 4-implementation/agent-state/config-changes.md. Links, code comments and nix comments that named the old sections point at the new pages.
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@ -179,7 +179,7 @@ the deploy node, and the graph shows the update as failed and the deploy as
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skipped. Each ten-minute retry of a failed update declares a fresh build and
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deploy behind it for every agent whose latest deploy the failed update skipped,
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so the run that succeeds sends them (see
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[Config changes](../../2-handbook/agents/config-changes.md#the-swarms-meta-flake)). A render
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[Config changes](../../4-implementation/agent-state/config-changes.md#the-swarms-meta-flake)). A render
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equal to the committed `flake.nix` sends no lock.
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The controller sends a deploy to every agent a hive places whenever the pin in
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