The copy planner treated every skills/agents/commands entry as a
directory and ran it through addDirRecursive, which lists files *under*
the path. For a subagent declared as a file (e.g.
`"agents": ["./agents/foo.md"]` — a standard Claude-Code shape) that
listed nothing, so the agent was silently dropped from the install even
though rewriteManifestPaths already remapped it to `./agents/foo.md`.
Stat each entry and branch: directories recurse as before, files are
queued directly (honoring the ignore matcher). Verified by the
comprehensive fixture's changelog-archivist.md agent.
Co-Authored-By: Claude Opus 4.8 (1M context) <noreply@anthropic.com>
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