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Fix docs_collect mod docs missing from nav YAML

Goal

(promoted from note)

Context

(see source note)

Prompt

Fix pipeio docs_collect to include mod-level docs (theory.md, spec.md) in the generated mkdocs nav YAML.

The bug: docs_collect correctly copies mod docs into docs/pipelines/{flow}/mods/{mod}/ but the nav YAML only includes overview, scripts, and notebooks — no mod entries.

Fix: Add a "Modules" (or "Mods") section to each flow's nav listing each mod's theory/spec pages.

Steps: 1. Read the docs_collect implementation in packages/pipeio 2. Find the nav YAML generation logic 3. After collecting mod docs, build nav entries: for each flow, add a "Modules" section listing each mod with its available pages (theory.md, spec.md, etc.) 4. Test with pipeio_docs_collect to verify mods appear in nav

Acceptance Criteria

  • [ ]

Result

(pending)

Batch Result

  • status: done
  • batch queue_id: 59776a5fb063
  • session: c1af094a-dd1c-44f6-ad61-3614f23dfd39
  • batch duration: 357.5s