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docs(cli): explain custom context freshness behavior

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azizur100389 2026-11-05 10:54:12 +00:00
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docs/cli-reference.md
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@ -86,6 +86,11 @@ is preserved. Even when the index is already up to date, a newly selected missin
file or prompt file without a block receives one; existing generated blocks keep
their community-skill rows during the surgical default-branch refresh.
Custom targets outside GitNexus-managed paths are not excluded from freshness
checks. Writing one can trigger another analysis even when no source files
changed. Use a managed target such as `.claude/CLAUDE.md` to avoid this with
the default indexing configuration.
`--skip-agents-md` suppresses custom-target updates too. `--index-only` suppresses
all context and skill injection. `--no-stats` omits volatile counts when generating
the selected target; `--self-commit` applies only to the selected target and does