gnosys 4.0.0

package/dist/lib/dream.js.map

@@ -0,0 +1 @@
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package/dist/lib/embeddings.d.ts

@@ -0,0 +1,84 @@
+/**
+ * Gnosys Embeddings — Lazy-loaded semantic embedding engine.
+ * Uses @xenova/transformers (ONNX, pure Node) with all-MiniLM-L6-v2.
+ * Model (~80 MB) is downloaded only on first use and cached.
+ * Embeddings are stored in SQLite as regeneratable sidecar data.
+ */
+declare const EMBEDDING_DIM = 384;
+export declare class GnosysEmbeddings {
+    private pipeline;
+    private db;
+    private storePath;
+    private modelReady;
+    constructor(storePath: string);
+    /**
+     * Lazily initialize the embedding model. Downloads on first use (~80 MB).
+     * Cached in ~/.cache/gnosys or GNOSYS_CACHE_DIR.
+     */
+    init(): Promise<void>;
+    /**
+     * Open (or create) the embeddings SQLite table.
+     * Stored in the same .config/search.db used by FTS5 search,
+     * or a separate embeddings.db if search.db isn't writable.
+     */
+    openDb(): any;
+    /**
+     * Embed a single text string. Returns a Float32Array of dimension 384.
+     */
+    embed(text: string): Promise<Float32Array>;
+    /**
+     * Embed multiple texts in a batch.
+     */
+    embedBatch(texts: string[]): Promise<Float32Array[]>;
+    /**
+     * Store an embedding in SQLite.
+     */
+    storeEmbedding(filePath: string, embedding: Float32Array, contentHash: string): void;
+    /**
+     * Get a stored embedding by file path.
+     */
+    getEmbedding(filePath: string): Float32Array | null;
+    /**
+     * Get all stored embeddings.
+     */
+    getAllEmbeddings(): {
+        filePath: string;
+        embedding: Float32Array;
+        contentHash: string;
+    }[];
+    /**
+     * Check if an embedding exists and is up to date.
+     */
+    isUpToDate(filePath: string, contentHash: string): boolean;
+    /**
+     * Count stored embeddings.
+     */
+    count(): number;
+    /**
+     * Check if embeddings exist (without loading the model).
+     */
+    hasEmbeddings(): boolean;
+    /**
+     * Clear all embeddings.
+     */
+    clear(): void;
+    /**
+     * Cosine similarity between two vectors.
+     * Assumes both are normalized (which all-MiniLM-L6-v2 with normalize=true gives us).
+     */
+    static cosineSimilarity(a: Float32Array, b: Float32Array): number;
+    /**
+     * Simple content hash for change detection.
+     */
+    static contentHash(content: string): string;
+    /**
+     * Get embedding index statistics.
+     */
+    getStats(): {
+        count: number;
+        dbSizeMB: number;
+    };
+    close(): void;
+}
+export { EMBEDDING_DIM };
+//# sourceMappingURL=embeddings.d.ts.map

package/dist/lib/embeddings.d.ts.map

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package/dist/lib/embeddings.js

@@ -0,0 +1,226 @@
+/**
+ * Gnosys Embeddings — Lazy-loaded semantic embedding engine.
+ * Uses @xenova/transformers (ONNX, pure Node) with all-MiniLM-L6-v2.
+ * Model (~80 MB) is downloaded only on first use and cached.
+ * Embeddings are stored in SQLite as regeneratable sidecar data.
+ */
+// Dynamic import — gracefully handles missing native module (dlopen failures)
+// eslint-disable-next-line @typescript-eslint/no-explicit-any
+let Database = null;
+try {
+    Database = (await import("better-sqlite3")).default;
+}
+catch {
+    // better-sqlite3 native module not available — embeddings features disabled
+}
+import path from "path";
+import fs from "fs/promises";
+import { enableWAL } from "./lock.js";
+const MODEL_NAME = "Xenova/all-MiniLM-L6-v2";
+const EMBEDDING_DIM = 384;
+export class GnosysEmbeddings {
+    pipeline = null;
+    // eslint-disable-next-line @typescript-eslint/no-explicit-any
+    db = null;
+    storePath;
+    modelReady = false;
+    constructor(storePath) {
+        this.storePath = storePath;
+    }
+    /**
+     * Lazily initialize the embedding model. Downloads on first use (~80 MB).
+     * Cached in ~/.cache/gnosys or GNOSYS_CACHE_DIR.
+     */
+    async init() {
+        if (this.modelReady)
+            return;
+        // Set cache directory before importing transformers
+        const cacheDir = process.env.GNOSYS_CACHE_DIR ||
+            path.join(process.env.HOME || process.env.USERPROFILE || "/tmp", ".cache", "gnosys");
+        await fs.mkdir(cacheDir, { recursive: true });
+        process.env.TRANSFORMERS_CACHE = cacheDir;
+        // Dynamic import — keeps @xenova/transformers out of the main bundle
+        const { pipeline } = await import("@xenova/transformers");
+        this.pipeline = (await pipeline("feature-extraction", MODEL_NAME, {
+            quantized: true,
+        }));
+        this.modelReady = true;
+    }
+    /**
+     * Open (or create) the embeddings SQLite table.
+     * Stored in the same .config/search.db used by FTS5 search,
+     * or a separate embeddings.db if search.db isn't writable.
+     */
+    openDb() {
+        if (this.db)
+            return this.db;
+        if (!Database)
+            return null; // Native module not available
+        const dbPath = path.join(this.storePath, ".config", "embeddings.db");
+        try {
+            this.db = new Database(dbPath);
+            enableWAL(this.db);
+        }
+        catch {
+            // Fallback to in-memory
+            this.db = new Database(":memory:");
+        }
+        this.db.exec(`
+      CREATE TABLE IF NOT EXISTS embeddings (
+        file_path TEXT PRIMARY KEY,
+        embedding BLOB NOT NULL,
+        content_hash TEXT NOT NULL,
+        updated_at TEXT NOT NULL
+      );
+    `);
+        return this.db;
+    }
+    /**
+     * Embed a single text string. Returns a Float32Array of dimension 384.
+     */
+    async embed(text) {
+        await this.init();
+        if (!this.pipeline)
+            throw new Error("Embedding model not initialized");
+        const output = await this.pipeline([text], { pooling: "mean", normalize: true });
+        const nested = output.tolist();
+        return new Float32Array(nested[0]);
+    }
+    /**
+     * Embed multiple texts in a batch.
+     */
+    async embedBatch(texts) {
+        if (texts.length === 0)
+            return [];
+        await this.init();
+        if (!this.pipeline)
+            throw new Error("Embedding model not initialized");
+        const results = [];
+        // Process in batches of 32 to manage memory
+        const batchSize = 32;
+        for (let i = 0; i < texts.length; i += batchSize) {
+            const batch = texts.slice(i, i + batchSize);
+            const output = await this.pipeline(batch, { pooling: "mean", normalize: true });
+            const nested = output.tolist();
+            for (const vec of nested) {
+                results.push(new Float32Array(vec));
+            }
+        }
+        return results;
+    }
+    /**
+     * Store an embedding in SQLite.
+     */
+    storeEmbedding(filePath, embedding, contentHash) {
+        const db = this.openDb();
+        const buffer = Buffer.from(embedding.buffer);
+        db.prepare("INSERT OR REPLACE INTO embeddings (file_path, embedding, content_hash, updated_at) VALUES (?, ?, ?, ?)").run(filePath, buffer, contentHash, new Date().toISOString());
+    }
+    /**
+     * Get a stored embedding by file path.
+     */
+    getEmbedding(filePath) {
+        const db = this.openDb();
+        const row = db.prepare("SELECT embedding FROM embeddings WHERE file_path = ?").get(filePath);
+        if (!row)
+            return null;
+        return new Float32Array(row.embedding.buffer, row.embedding.byteOffset, row.embedding.byteLength / 4);
+    }
+    /**
+     * Get all stored embeddings.
+     */
+    getAllEmbeddings() {
+        const db = this.openDb();
+        const rows = db.prepare("SELECT file_path, embedding, content_hash FROM embeddings").all();
+        return rows.map((r) => ({
+            filePath: r.file_path,
+            embedding: new Float32Array(r.embedding.buffer, r.embedding.byteOffset, r.embedding.byteLength / 4),
+            contentHash: r.content_hash,
+        }));
+    }
+    /**
+     * Check if an embedding exists and is up to date.
+     */
+    isUpToDate(filePath, contentHash) {
+        const db = this.openDb();
+        const row = db.prepare("SELECT content_hash FROM embeddings WHERE file_path = ?").get(filePath);
+        return row?.content_hash === contentHash;
+    }
+    /**
+     * Count stored embeddings.
+     */
+    count() {
+        const db = this.openDb();
+        const row = db.prepare("SELECT COUNT(*) as cnt FROM embeddings").get();
+        return row.cnt;
+    }
+    /**
+     * Check if embeddings exist (without loading the model).
+     */
+    hasEmbeddings() {
+        try {
+            return this.count() > 0;
+        }
+        catch {
+            return false;
+        }
+    }
+    /**
+     * Clear all embeddings.
+     */
+    clear() {
+        const db = this.openDb();
+        db.exec("DELETE FROM embeddings");
+    }
+    /**
+     * Cosine similarity between two vectors.
+     * Assumes both are normalized (which all-MiniLM-L6-v2 with normalize=true gives us).
+     */
+    static cosineSimilarity(a, b) {
+        let dot = 0;
+        for (let i = 0; i < a.length; i++) {
+            dot += a[i] * b[i];
+        }
+        return dot;
+    }
+    /**
+     * Simple content hash for change detection.
+     */
+    static contentHash(content) {
+        // Simple FNV-1a hash — fast, good enough for change detection
+        let hash = 2166136261;
+        for (let i = 0; i < content.length; i++) {
+            hash ^= content.charCodeAt(i);
+            hash = (hash * 16777619) >>> 0;
+        }
+        return hash.toString(36);
+    }
+    /**
+     * Get embedding index statistics.
+     */
+    getStats() {
+        const db = this.openDb();
+        const row = db.prepare("SELECT COUNT(*) as count FROM embeddings").get();
+        const dbPath = path.join(this.storePath, ".config", "embeddings.db");
+        let dbSizeMB = 0;
+        try {
+            const stat = require("fs").statSync(dbPath);
+            dbSizeMB = stat.size / (1024 * 1024);
+        }
+        catch {
+            // File might not exist yet
+        }
+        return { count: row.count, dbSizeMB };
+    }
+    close() {
+        try {
+            this.db?.close();
+        }
+        catch {
+            // ignore
+        }
+        this.db = null;
+    }
+}
+export { EMBEDDING_DIM };
+//# sourceMappingURL=embeddings.js.map

package/dist/lib/embeddings.js.map

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package/dist/lib/export.d.ts

@@ -0,0 +1,92 @@
+/**
+ * Gnosys Obsidian Export Bridge — One-way export from gnosys.db to Obsidian vault.
+ *
+ * Converts the agent-native SQLite store into human-friendly atomic Markdown
+ * files with YAML frontmatter, [[wikilinks]], and proper folder structure.
+ *
+ * This is a completely separate module — it reads from gnosys.db and writes
+ * to a target directory. It never modifies gnosys.db.
+ *
+ * Output structure:
+ *   target/
+ *     category/
+ *       memory-title.md    (YAML frontmatter + content + wikilinks)
+ *     _summaries/
+ *       category.md        (category-level summaries from dream mode)
+ *     _review/
+ *       suggested-reviews.md (review suggestions from dream mode)
+ *     _graph/
+ *       relationships.md   (relationship index)
+ */
+import { GnosysDB } from "./db.js";
+export interface ExportOptions {
+    /** Target directory for export (will be created if needed) */
+    targetDir: string;
+    /** Only export active tier (default: true) */
+    activeOnly?: boolean;
+    /** Include summaries from dream mode */
+    includeSummaries?: boolean;
+    /** Include review suggestions */
+    includeReviews?: boolean;
+    /** Include relationship graph */
+    includeGraph?: boolean;
+    /** Overwrite existing files (default: false — skip existing) */
+    overwrite?: boolean;
+    /** Progress callback */
+    onProgress?: (current: number, total: number, file: string) => void;
+}
+export interface ExportReport {
+    memoriesExported: number;
+    memoriesSkipped: number;
+    summariesExported: number;
+    reviewsExported: boolean;
+    graphExported: boolean;
+    targetDir: string;
+    errors: string[];
+}
+export declare class GnosysExporter {
+    private db;
+    constructor(db: GnosysDB);
+    /**
+     * Export gnosys.db contents to an Obsidian-compatible vault structure.
+     */
+    export(options: ExportOptions): Promise<ExportReport>;
+    /**
+     * Export a single memory as a Markdown file with YAML frontmatter.
+     * Returns true if exported, false if skipped (already exists).
+     */
+    private exportMemory;
+    /**
+     * Export category summaries from the summaries table.
+     */
+    private exportSummaries;
+    /**
+     * Export review suggestions from dream mode.
+     */
+    private exportReviews;
+    /**
+     * Export the relationship graph as a navigable index with wikilinks.
+     */
+    private exportGraph;
+    /**
+     * Get all relationships for a memory (both directions).
+     */
+    private getMemoryRelationships;
+    /**
+     * Build [[wikilinks]] from relationships.
+     */
+    private buildWikilinks;
+    /**
+     * Parse tags from JSON string.
+     */
+    private parseTags;
+    /**
+     * Slugify a title for use as a filename.
+     */
+    private slugify;
+}
+/**
+ * Format an export report as human-readable text.
+ */
+export declare function formatExportReport(report: ExportReport): string;
+//# sourceMappingURL=export.d.ts.map

package/dist/lib/export.d.ts.map

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