@runcore-sh/runcore 0.4.0 → 0.5.1

package/dist/search/brain-docs.js

@@ -2,49 +2,135 @@
  * Brain document finder — auto-detects document references in user messages
  * and resolves them to actual brain files.
  *
- * Parallels how calendar/email/board keywords trigger context injection.
- * Scans brain/content/drafts, brain/knowledge/notes, brain/knowledge/research,
- * and brain/knowledge/protocols for matching filenames.
+ * Three search modes (in priority order):
+ * 1. RAG semantic search — fast, uses pre-computed embeddings
+ * 2. Filename/path match — keyword scoring on filenames and directories
+ * 3. Keyword content scan — REMOVED (replaced by RAG)
+ *
+ * Returns best matching file + sibling listing (option B from spec).
  */
 import { readdir } from "node:fs/promises";
-import { join, basename } from "node:path";
+import { join, basename, dirname } from "node:path";
 import { readBrainFile } from "../lib/brain-io.js";
-import { BRAIN_DIR } from "../lib/paths.js";
-/** Directories to scan for documents the user might reference by description. */
-const DOC_DIRS = [
-    join(BRAIN_DIR, "content", "drafts"),
-    join(BRAIN_DIR, "knowledge", "notes"),
-    join(BRAIN_DIR, "knowledge", "research"),
-    join(BRAIN_DIR, "knowledge", "protocols"),
-];
-/** Does the message reference a document, paper, draft, note, or similar? */
-const DOC_REF_PATTERN = /\b(read|show|open|pull up|find|get|load|look at|check)\b.*\b(paper|draft|doc|document|note|post|thread|whitepaper|positioning|writeup|write-?up|article|research|report)\b/i;
-/**
- * Tokenize a user message into searchable keywords.
- * Strips common verbs/articles, returns lowercase stems.
- */
+import { createLogger } from "../utils/logger.js";
+const log = createLogger("brain-docs");
+// ── Module-level RAG reference (set during server init) ──────────────────────
+let _rag = null;
+/** Wire the BrainRAG instance. Called once during server startup. */
+export function setBrainRAG(rag) {
+    _rag = rag;
+}
+// ── Patterns ─────────────────────────────────────────────────────────────────
+/** Explicit document reference — "read my paper", "show the draft", etc. */
+const DOC_REF_PATTERN = /\b(read|show|open|pull up|find|get|load|look at|check)\b.*\b(paper|draft|doc|document|note|post|thread|whitepaper|positioning|writeup|write-?up|article|research|report|book|chapter|spec)\b/i;
+/** Question about brain knowledge — "which book", "what does X say", "where is the" */
+const KNOWLEDGE_QUESTION_PATTERN = /\b(which|what|where|how|did|does|do|have|is|are|tell me|remind me)\b.*\b(book|chapter|spec|paper|draft|note|plan|goal|roadmap|decision|protocol|template|principle|identity|series|write|wrote|writing|document|research|finance|govern)\b/i;
+// ── Keyword extraction ───────────────────────────────────────────────────────
 function extractKeywords(message) {
     const stopWords = new Set([
         "the", "a", "an", "my", "our", "that", "this", "it", "its",
         "read", "show", "open", "pull", "up", "find", "get", "load",
         "look", "at", "check", "can", "you", "me", "for", "about",
         "please", "and", "or", "in", "on", "to", "of", "with",
+        "which", "what", "where", "how", "did", "does", "have",
+        "is", "are", "tell", "remind", "we", "were", "was", "been",
+        "do", "not", "but", "from", "who", "they",
     ]);
-    return message
+    const tokens = message
         .toLowerCase()
         .replace(/[^a-z0-9\s-]/g, " ")
         .split(/\s+/)
-        .filter((w) => w.length > 2 && !stopWords.has(w));
+        .filter(Boolean);
+    const keywords = [];
+    for (let i = 0; i < tokens.length; i++) {
+        const t = tokens[i];
+        if (/^\d+$/.test(t)) {
+            keywords.push(t);
+            if (i > 0 && keywords.length >= 2) {
+                const prev = keywords[keywords.length - 2];
+                if (!/^\d+$/.test(prev)) {
+                    keywords.push(prev + t);
+                }
+            }
+        }
+        else if (t.length > 2 && !stopWords.has(t)) {
+            keywords.push(t);
+        }
+    }
+    return keywords;
 }
+// ── Main search ──────────────────────────────────────────────────────────────
 /**
- * Score how well a filename matches a set of keywords.
- * Filename is split on hyphens/underscores/dots and compared to keywords.
+ * Search brain files for the best match to the user's message.
+ *
+ * Priority:
+ * 1. RAG semantic search (if available and indexed)
+ * 2. Keyword filename match (fallback)
  */
-function scoreMatch(filename, keywords) {
+export async function findBrainDocument(message) {
+    const keywords = extractKeywords(message);
+    const docMatch = DOC_REF_PATTERN.test(message);
+    const knowledgeMatch = KNOWLEDGE_QUESTION_PATTERN.test(message);
+    log.info(`findBrainDocument: keywords=[${keywords.join(",")}] docRef=${docMatch} knowledgeQ=${knowledgeMatch}`);
+    if (!docMatch && !knowledgeMatch) {
+        log.info("No pattern matched — skipping brain doc search");
+        return null;
+    }
+    // ── Mode 1: RAG semantic search ──────────────────────────────────────────
+    if (_rag && _rag.ready) {
+        try {
+            log.info("Trying RAG semantic search...");
+            const results = await _rag.query(message, 5);
+            if (results.length > 0) {
+                const best = results[0];
+                log.info(`RAG hit: ${best.filePath} (score: ${best.score.toFixed(3)})${best.siblings ? `, ${best.siblings.length} siblings` : ""}`);
+                const content = await readBrainFile(best.fullPath);
+                const filename = basename(best.filePath);
+                // Build sibling listing
+                let siblings;
+                if (best.siblings && best.siblings.length > 0) {
+                    siblings = best.siblings;
+                }
+                return { path: best.fullPath, filename, content, siblings };
+            }
+            log.info("RAG returned no results above threshold");
+        }
+        catch (err) {
+            log.error("RAG search failed, falling back to keyword match", {
+                error: err instanceof Error ? err.message : String(err),
+            });
+        }
+    }
+    else {
+        log.info("RAG not available, using keyword fallback");
+    }
+    // ── Mode 2: Keyword filename match (fallback) ───────────────────────────
+    if (keywords.length === 0)
+        return null;
+    return keywordFilenameSearch(keywords);
+}
+// ── Keyword filename fallback ────────────────────────────────────────────────
+import { stat as fsStat } from "node:fs/promises";
+import { FILES_DIR, resolveBrainDir } from "../lib/paths.js";
+const DOC_DIRS = [
+    FILES_DIR,
+    resolveBrainDir("content"),
+    resolveBrainDir("knowledge"),
+    resolveBrainDir("identity"),
+    resolveBrainDir("operations"),
+    resolveBrainDir("skills"),
+    resolveBrainDir("templates"),
+];
+const SEARCHABLE_EXTS = new Set([".md", ".yaml", ".yml", ".txt", ".json"]);
+const SKIP_DIRS = new Set([
+    "node_modules", ".git", ".obsidian", "logs", "tasks",
+    "daily", "hourly", "memory", "ops", "metrics", "ledger",
+]);
+function scoreFilename(filename, keywords) {
     const parts = basename(filename, ".md")
         .toLowerCase()
         .split(/[-_.]/)
-        .filter((p) => p.length > 2);
+        .filter((p) => p.length > 0);
     let score = 0;
     for (const kw of keywords) {
         for (const part of parts) {
@@ -54,46 +140,78 @@ function scoreMatch(filename, keywords) {
     }
     return score;
 }
-/**
- * Search brain document directories for files matching the user's message.
- * Returns the best match (if any) with its content loaded.
- */
-export async function findBrainDocument(message) {
-    // Only trigger on messages that reference a document
-    if (!DOC_REF_PATTERN.test(message))
-        return null;
-    const keywords = extractKeywords(message);
-    if (keywords.length === 0)
-        return null;
-    // Scan all doc directories, collect candidates
-    const candidates = [];
-    for (const dir of DOC_DIRS) {
+async function collectFiles(dir) {
+    const results = [];
+    async function walk(d) {
+        let entries;
         try {
-            const files = await readdir(dir);
-            for (const file of files) {
-                if (!file.endsWith(".md"))
-                    continue;
-                const score = scoreMatch(file, keywords);
-                if (score > 0) {
-                    candidates.push({ path: join(dir, file), filename: file, score });
+            entries = await readdir(d);
+        }
+        catch {
+            return;
+        }
+        for (const name of entries) {
+            if (name.startsWith(".") && name !== ".config")
+                continue;
+            if (SKIP_DIRS.has(name))
+                continue;
+            const full = join(d, name);
+            try {
+                const s = await fsStat(full);
+                if (s.isDirectory()) {
+                    await walk(full);
+                }
+                else {
+                    const ext = name.substring(name.lastIndexOf(".")).toLowerCase();
+                    if (SEARCHABLE_EXTS.has(ext) && s.size < 500_000) {
+                        results.push({ path: full, filename: name });
+                    }
                 }
             }
+            catch {
+                continue;
+            }
         }
-        catch {
-            // Directory might not exist — skip
+    }
+    await walk(dir);
+    return results;
+}
+async function keywordFilenameSearch(keywords) {
+    const candidates = [];
+    const seen = new Set();
+    for (const dir of DOC_DIRS) {
+        if (seen.has(dir))
+            continue;
+        seen.add(dir);
+        const files = await collectFiles(dir);
+        for (const file of files) {
+            const parentDir = basename(dirname(file.path));
+            const score = scoreFilename(file.filename, keywords) + scoreFilename(parentDir, keywords);
+            if (score > 0) {
+                candidates.push({ ...file, score });
+            }
         }
     }
     if (candidates.length === 0)
         return null;
-    // Sort by score descending, take the best match
     candidates.sort((a, b) => b.score - a.score);
-    const best = candidates[0];
-    // Require at least 2 keyword hits to avoid false positives
-    if (best.score < 2)
+    log.info(`Keyword fallback: ${candidates.length} candidates, best: ${candidates[0].filename} (score: ${candidates[0].score})`);
+    if (candidates[0].score < 2)
         return null;
     try {
+        const best = candidates[0];
         const content = await readBrainFile(best.path);
-        return { path: best.path, filename: best.filename, content };
+        // Sibling listing
+        const dir = dirname(best.path);
+        let siblings;
+        try {
+            const entries = await readdir(dir);
+            const sibs = entries.filter((e) => e !== best.filename);
+            if (sibs.length > 0)
+                siblings = sibs;
+        }
+        catch { /* ignore */ }
+        return { path: best.path, filename: best.filename, content, siblings };
     }
     catch {
         return null;

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package/dist/search/brain-rag.d.ts

@@ -0,0 +1,45 @@
+/**
+ * Brain RAG — semantic retrieval for brain files.
+ *
+ * Indexes brain files into chunks with Ollama embeddings.
+ * Stores in brain/memory/file-embeddings.jsonl (append-only).
+ * In-memory cosine similarity search over chunk vectors.
+ *
+ * The vector index is a derived cache. Delete the file, re-index from brain.
+ */
+export interface RAGResult {
+    filePath: string;
+    heading: string;
+    chunk: string;
+    score: number;
+    fullPath: string;
+    /** Other files in the same directory (sibling listing for option B) */
+    siblings?: string[];
+}
+export declare class BrainRAG {
+    private chunks;
+    /** Track mtime per file so we know what's stale */
+    private fileMtimes;
+    private embeddingsPath;
+    private _ready;
+    constructor();
+    get ready(): boolean;
+    /** Load existing embeddings from disk. Fast — no Ollama needed. */
+    load(): Promise<void>;
+    /** Full index: scan all brain files, chunk and embed anything new or changed. */
+    indexAll(): Promise<{
+        indexed: number;
+        skipped: number;
+        errors: number;
+    }>;
+    /** Read file content, handling PDFs (text and scanned) specially. */
+    private readFileContent;
+    /** Index a single file: chunk, embed, persist. */
+    indexFile(filePath: string): Promise<void>;
+    /** Semantic search: embed query, return top-k file chunks with scores. */
+    query(text: string, topK?: number): Promise<RAGResult[]>;
+    /** Force re-index: clear in-memory state and rebuild from files. */
+    reindex(): Promise<void>;
+    private collectFiles;
+}
+//# sourceMappingURL=brain-rag.d.ts.map

package/dist/search/brain-rag.d.ts.map

@@ -0,0 +1 @@
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package/dist/search/brain-rag.js

@@ -0,0 +1,275 @@
+/**
+ * Brain RAG — semantic retrieval for brain files.
+ *
+ * Indexes brain files into chunks with Ollama embeddings.
+ * Stores in brain/memory/file-embeddings.jsonl (append-only).
+ * In-memory cosine similarity search over chunk vectors.
+ *
+ * The vector index is a derived cache. Delete the file, re-index from brain.
+ */
+import { join, relative, basename, dirname } from "node:path";
+import { readdir, stat } from "node:fs/promises";
+import { createLogger } from "../utils/logger.js";
+import { readBrainFile, readBrainLines, appendBrainLine } from "../lib/brain-io.js";
+import { BRAIN_DIR, FILES_DIR, resolveBrainDir } from "../lib/paths.js";
+import { embed, embedBatch, isOllamaAvailable, cosine } from "./embedder.js";
+import { chunkMarkdown } from "./chunker.js";
+import { readFile } from "node:fs/promises";
+import { extractPdfText, extractImageText } from "../files/extract.js";
+const log = createLogger("brain-rag");
+const FILE_EMBEDDINGS = "file-embeddings.jsonl";
+const BATCH_SIZE = 10;
+const SEARCHABLE_EXTS = new Set([".md", ".yaml", ".yml", ".txt", ".pdf"]);
+const SKIP_DIRS = new Set([
+    "node_modules", ".git", ".obsidian", "logs", "tasks",
+    "daily", "hourly", "memory", "ops", "metrics", "ledger",
+    ".config",
+]);
+const MAX_FILE_SIZE = 500_000; // 500KB
+/** Directories to scan for brain files. */
+const SCAN_DIRS = [
+    FILES_DIR,
+    resolveBrainDir("content"),
+    resolveBrainDir("knowledge"),
+    resolveBrainDir("identity"),
+    resolveBrainDir("operations"),
+    resolveBrainDir("skills"),
+    resolveBrainDir("templates"),
+];
+// ── BrainRAG class ───────────────────────────────────────────────────────────
+export class BrainRAG {
+    chunks = new Map();
+    /** Track mtime per file so we know what's stale */
+    fileMtimes = new Map();
+    embeddingsPath;
+    _ready = false;
+    constructor() {
+        this.embeddingsPath = join(BRAIN_DIR, "memory", FILE_EMBEDDINGS);
+    }
+    get ready() {
+        return this._ready;
+    }
+    /** Load existing embeddings from disk. Fast — no Ollama needed. */
+    async load() {
+        const lines = await readBrainLines(this.embeddingsPath);
+        let loaded = 0;
+        for (const line of lines) {
+            try {
+                const entry = JSON.parse(line);
+                if (!entry.id || !entry.v)
+                    continue;
+                // Last-write-wins: later lines for same ID supersede earlier
+                this.chunks.set(entry.id, {
+                    id: entry.id,
+                    filePath: entry.filePath,
+                    heading: entry.heading,
+                    index: entry.index,
+                    mtime: entry.mtime,
+                    vec: new Float32Array(entry.v),
+                });
+                // Track highest mtime per file
+                const existing = this.fileMtimes.get(entry.filePath) ?? 0;
+                if (entry.mtime > existing)
+                    this.fileMtimes.set(entry.filePath, entry.mtime);
+                loaded++;
+            }
+            catch {
+                continue;
+            }
+        }
+        this._ready = true;
+        if (loaded > 0)
+            log.info(`Loaded ${this.chunks.size} chunk embeddings from disk`);
+    }
+    /** Full index: scan all brain files, chunk and embed anything new or changed. */
+    async indexAll() {
+        const available = await isOllamaAvailable();
+        if (!available) {
+            log.info("Ollama unavailable — skipping file indexing");
+            return { indexed: 0, skipped: 0, errors: 0 };
+        }
+        let indexed = 0;
+        let skipped = 0;
+        let errors = 0;
+        const seen = new Set();
+        for (const dir of SCAN_DIRS) {
+            if (seen.has(dir))
+                continue;
+            seen.add(dir);
+            const files = await this.collectFiles(dir);
+            for (const file of files) {
+                try {
+                    const relPath = relative(BRAIN_DIR, file.path).replace(/\\/g, "/");
+                    const existingMtime = this.fileMtimes.get(relPath) ?? 0;
+                    if (file.mtime <= existingMtime) {
+                        skipped++;
+                        continue;
+                    }
+                    await this.indexFile(file.path);
+                    indexed++;
+                }
+                catch (err) {
+                    errors++;
+                    log.error(`Failed to index ${file.path}`, {
+                        error: err instanceof Error ? err.message : String(err),
+                    });
+                }
+            }
+        }
+        log.info(`Index complete: ${indexed} indexed, ${skipped} skipped, ${errors} errors (${this.chunks.size} total chunks)`);
+        return { indexed, skipped, errors };
+    }
+    /** Read file content, handling PDFs (text and scanned) specially. */
+    async readFileContent(filePath) {
+        const ext = filePath.substring(filePath.lastIndexOf(".")).toLowerCase();
+        if (ext === ".pdf") {
+            const buffer = Buffer.from(await readFile(filePath));
+            // Try text extraction first
+            let text = await extractPdfText(buffer);
+            // If PDF is scanned (no extractable text), fall back to OCR
+            if (!text.trim() || text.trim().length < 50) {
+                try {
+                    log.info(`PDF appears scanned, trying OCR: ${basename(filePath)}`);
+                    text = await extractImageText(buffer);
+                }
+                catch (err) {
+                    log.warn(`OCR failed for ${basename(filePath)}`, {
+                        error: err instanceof Error ? err.message : String(err),
+                    });
+                }
+            }
+            return text;
+        }
+        return readBrainFile(filePath);
+    }
+    /** Index a single file: chunk, embed, persist. */
+    async indexFile(filePath) {
+        const relPath = relative(BRAIN_DIR, filePath).replace(/\\/g, "/");
+        const content = await this.readFileContent(filePath);
+        const fileStat = await stat(filePath);
+        const mtime = fileStat.mtimeMs;
+        const fileChunks = chunkMarkdown(relPath, content);
+        if (fileChunks.length === 0)
+            return;
+        // Embed in batches
+        for (let i = 0; i < fileChunks.length; i += BATCH_SIZE) {
+            const batch = fileChunks.slice(i, i + BATCH_SIZE);
+            const texts = batch.map((c) => c.text);
+            const vecs = await embedBatch(texts);
+            for (let j = 0; j < batch.length; j++) {
+                const chunk = batch[j];
+                const record = {
+                    id: chunk.id,
+                    filePath: relPath,
+                    heading: chunk.heading,
+                    index: chunk.index,
+                    mtime,
+                    vec: vecs[j],
+                };
+                this.chunks.set(chunk.id, record);
+                // Persist
+                const line = {
+                    id: chunk.id,
+                    filePath: relPath,
+                    heading: chunk.heading,
+                    index: chunk.index,
+                    mtime,
+                    v: Array.from(vecs[j]),
+                };
+                await appendBrainLine(this.embeddingsPath, JSON.stringify(line));
+            }
+        }
+        this.fileMtimes.set(relPath, mtime);
+        log.info(`Indexed ${relPath}: ${fileChunks.length} chunks`);
+    }
+    /** Semantic search: embed query, return top-k file chunks with scores. */
+    async query(text, topK = 5) {
+        if (this.chunks.size === 0)
+            return [];
+        const queryVec = await embed(text);
+        const scored = [];
+        for (const record of this.chunks.values()) {
+            const score = cosine(queryVec, record.vec);
+            scored.push({ record, score });
+        }
+        scored.sort((a, b) => b.score - a.score);
+        const topResults = scored.slice(0, topK);
+        const results = [];
+        for (const { record, score } of topResults) {
+            if (score < 0.3)
+                continue; // threshold
+            const fullPath = join(BRAIN_DIR, record.filePath);
+            // Option B: sibling listing
+            const dir = dirname(fullPath);
+            let siblings;
+            try {
+                const entries = await readdir(dir);
+                const sibs = entries.filter((e) => e !== basename(record.filePath));
+                if (sibs.length > 0)
+                    siblings = sibs;
+            }
+            catch { /* ignore */ }
+            results.push({
+                filePath: record.filePath,
+                heading: record.heading,
+                chunk: "", // caller reads full file; chunk text not persisted
+                score,
+                fullPath,
+                siblings,
+            });
+        }
+        // Deduplicate by filePath — keep highest score per file
+        const byFile = new Map();
+        for (const r of results) {
+            const existing = byFile.get(r.filePath);
+            if (!existing || r.score > existing.score) {
+                byFile.set(r.filePath, r);
+            }
+        }
+        return Array.from(byFile.values()).sort((a, b) => b.score - a.score);
+    }
+    /** Force re-index: clear in-memory state and rebuild from files. */
+    async reindex() {
+        this.chunks.clear();
+        this.fileMtimes.clear();
+        await this.indexAll();
+    }
+    // ── File collection ──────────────────────────────────────────────────────
+    async collectFiles(dir) {
+        const results = [];
+        const walk = async (d) => {
+            let entries;
+            try {
+                entries = await readdir(d);
+            }
+            catch {
+                return;
+            }
+            for (const name of entries) {
+                if (name.startsWith("."))
+                    continue;
+                if (SKIP_DIRS.has(name))
+                    continue;
+                const full = join(d, name);
+                try {
+                    const s = await stat(full);
+                    if (s.isDirectory()) {
+                        await walk(full);
+                    }
+                    else {
+                        const ext = name.substring(name.lastIndexOf(".")).toLowerCase();
+                        if (SEARCHABLE_EXTS.has(ext) && s.size < MAX_FILE_SIZE) {
+                            results.push({ path: full, mtime: s.mtimeMs });
+                        }
+                    }
+                }
+                catch {
+                    continue;
+                }
+            }
+        };
+        await walk(dir);
+        return results;
+    }
+}
+//# sourceMappingURL=brain-rag.js.map

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