mi-spectral

Audit the mi-spectral sourced derivation (manuscript/derivation.qmd, or any manuscript/*.qmd) for verification and citation-discipline compliance, and emit a flag-only report. READ-ONLY: it diagnoses and flags, it never edits the manuscript or literature. Use this whenever the user asks to audit, check, verify, vet, or review the derivation / the proof / the sourced derivation for citation integrity, broken source pointers, hallucinated or unsupported citations, unreproducible numbers, dangling cross-references, missing Monte Carlo asserts, or over-claiming — and when they say "/derivation-audit", "audit the derivation", "is every claim sourced", "check the proof's citations", or "does the evidence actually back the claims".

Run one cycle of the human-in-the-loop manuscript review protocol on a target (level1, level2, level3-decomposition, or a section id like S4). Use when the user says "/section-review <target>", "review section X", "let's do the level 1 annotation", "start the review loop", or returns an annotated extract containing

Project-manager dashboard for the mi-spectral manuscript. Use when the user asks "/status", "where are we", "what's next", "what am I blocked on", "what's waiting on me", or at the start of a manuscript work session. Derives the picture from manuscript/plan/status.json, decisions.md, the level files, and git — never from session memory — and reports drift if they disagree.

Sync the Better BibTeX export to mi-spectral/literature/<citekey>.md files (citation-discipline bridge). Use when the user asks to "sync the literature", "refresh literature files", "lit-sync", or after exporting a new BibTeX from Zotero. Parses literature/mi-spectral-better-bibTeX.bib, finds each PDF in the MI-SPECTRAL drive folder by author/year, looks up cached Mathpix conversions by SHA256, and writes per-citekey markdown with YAML frontmatter. Idempotent.