pipeio docs_collect: no index.md generated for notebook sections
When pipeio_docs_collect collects published notebooks into docs/pipelines/{flow}/notebooks/, it creates nav entries for individual notebook HTML files but does not generate an index.md landing page for the notebooks directory.
This causes mkdocs INFO warnings about unrecognized relative links (e.g., preprocess_ieeg/notebooks) from the pipelines index.md.
Expected: generate a notebooks/index.md listing the available notebooks for each flow that has published notebooks.
Source context: pixecog¶
PixEcog (pixecog): Neuropixels and ECoG dataset and analysis
Recent commits:
36f9326 Add result note directory and sample note
62841d9 Add questio YAML data model (questions.yml + milestones.yml)
9b2f6fa Scaffold ecephys TTL removal mod, flow overview + mod docs, demo notebook
README:
type: readme
Quick Start for Collaborators¶
Follow this checklist to get started with Pixecog documentation and workflows.
🐀 Pixecog Project — Compact Overview¶
Core principles
- One immutable BIDS raw dataset (
raw/) as the canonical baseline - Each analysis pipeline ha
Related Notes¶
- issue-arash-20260408-041909-523276.md — Same tool (pipeio docs_collect) and directly related index generation issue
- issue-arash-20260408-041843-212992.md — pipeio registry_scan has_docs flag is broken — related to flow-local docs detection that docs_collect depends on
- issue-arash-20260406-220445-357250.md — pipeio_nb_sync notebook publishing issue — upstream step that produces the notebooks docs_collect ingests
- issue-arash-20260402-121445-694073.md — mkdocs transclusion and nav setup — current note's symptom is mkdocs nav warnings about missing notebook index