docs(ir): fix stale canonical pipeline shape and Conclusion trigger

[github-actions]

Agent Documentation Update

Findings

Area	Issue	File(s)
accuracy	docs/ir.md described the canonical agentic-pipeline shape as Setup → Agent → Detection → SafeOutputs → Teardown (plus Conclusion "when conclusion: is configured") in two places (the module-layout intro and the "Per-target compilers" section). This is stale: src/compile/agentic_pipeline.rs (and every other reference page — AGENTS.md, docs/cli.md, docs/extending.md) documents the real shape as Setup → Agent → Detection → (ManualReview?) → Custom_* → SafeOutputs(+SafeOutputs_Reviewed?) → Teardown → Conclusion. It also invented a conclusion: front-matter field that does not exist — FrontMatter in src/compile/types.rs has no such field; Conclusion is actually emitted whenever safe-outputs: is configured (correctly stated in docs/conclusion.md).	docs/ir.md

Applied Fixes

• Updated both pipeline-shape descriptions in docs/ir.md to the correct Setup → Agent → Detection → (ManualReview?) → Custom_* → SafeOutputs(+SafeOutputs_Reviewed?) → Teardown → Conclusion shape, matching AGENTS.md, docs/cli.md, and docs/extending.md.
• Removed the incorrect reference to a conclusion: front-matter field and replaced it with the accurate trigger rule (Conclusion emitted whenever safe-outputs: is configured), consistent with docs/conclusion.md.

Notes

Verified by comparing docs/ir.md against src/compile/agentic_pipeline.rs, src/compile/types.rs (FrontMatter struct — no conclusion field), and the matching, already-correct shape descriptions in AGENTS.md, docs/cli.md, docs/extending.md, and docs/conclusion.md.

Before making this change I audited CLI commands (src/main.rs Commands enum vs docs/cli.md), the FrontMatter field list vs docs/front-matter.md, safe-output tool coverage (src/safe_outputs/*.rs vs docs/safe-outputs.md), MCP/runtime/execution-context/supply-chain/codemod docs vs their source structs, the AGENTS.md architecture tree vs find src -name '*.rs', and all three prompts/*.md guides — no further material drift was found there.

An earlier PR (#2147) proposed this exact fix but was closed without merging, and no currently open PR targets this file, so the drift is still live on main.

---

Created by the agent-documentation maintainer workflow.

Generated by Agent Documentation Maintainer · auto · 292 AIC · ⌖ 8.87 AIC · ⊞ 11.9K · ◷

[azure-pipelines]

Azure Pipelines:
2 pipeline(s) were filtered out due to trigger conditions.
There may be pipelines that require an authorized user to comment /azp run to run.