yoke-retrofitlisted

# Yoke Retrofit Set up or update Yoke through the shared `yoke setup` contract. 1. Inspect the project and identify the current host (`claude`, `codex`, or `gemini`). 2. Ask these setup questions one at a time and give a direct recommendation: - target agents (recommend the current host; use `all` for deliberately cross-agent projects), - code-graph tool, - autonomous loop on/off, - default runner (recommend the current host), - decision mode: `auto` or `critical`. 3. Recommend the code graph based on this project: - **Serena** is LSP-accurate and best for large typed codebases or systematic symbol refactors where a missed reference is costly. It needs a language server per language. - **graphify** is fast and multimodal, and is best for exploration, migration, onboarding, or mixed code and document repositories. Its graph is an index and can become stale. 4. Apply the answers without a second round of prompts: `yoke setup . --yes --host=<host> --agent=<agents> --code-graph=<choice> --runner=<runner> --decision-policy=<auto|critical> --loop|--no-loop`. A human who runs `yoke setup .` directly receives the same five terminal questions. 5. Show the generated report and backup paths. Existing files are backed up under `.yoke/backup/`; settings are merged where supported. 6. If an old generated `CLAUDE.md` or `GEMINI.md` contained project-specific instructions, restore them inside its `<!-- yoke:preserve:start -->` / `<!-- yoke:preserve:end -->` block