Ingest a new source into the wiki. Reads the source, summarizes it, creates a wiki/sources/ page, updates affected topic and entity pages, flags contradictions, and logs the activity. Trigger phrases: /brain-ingest, ingest [file or URL], add this source, read and file this, process this article/paper/note.

Redesign the qmd schema for this vault — analyze the current wiki, recommend a new set of collections and contexts, update scripts/qmd/setup.ts, then tear down and rebuild the index from scratch. Destructive. Trigger phrases: /brain-rebuild, rebuild the brain, restructure qmd, redesign collections, redo contexts, recompute schema.

Refresh the qmd index for this vault — re-scans all collections for new/changed files and regenerates vector embeddings. Use after a bulk ingest session, after manual file edits, or whenever search feels stale. Trigger phrases: /brain-refresh, refresh the brain, refresh embeddings, re-embed wiki, update qmd index, refresh search index.

Use qmd CLI to manage collections, index documents, search, and query a local semantic knowledge base. Use when the user mentions qmd, searching a collection, indexing files, running queries, hybrid search, BM25, vector search, or managing a document index. Covers: collection add/list/remove/rename, context management, get/multi-get, update, embed, query, search, vsearch, and MCP server commands.