agentdb 1.6.1 → 2.0.0-alpha.2

package/dist/db-unified.d.ts

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+/**
+ * Unified Database Layer for AgentDB v2
+ *
+ * Architecture:
+ * - PRIMARY: RuVector GraphDatabase (@ruvector/graph-node) for new databases
+ * - FALLBACK: SQLite (sql.js) for legacy databases
+ *
+ * Detection Logic:
+ * 1. Check if database file exists
+ * 2. If exists, check file signature to determine type
+ * 3. If new database or .graph extension → use GraphDatabase
+ * 4. If .db extension and SQLite signature → use SQLite (legacy mode)
+ *
+ * Migration:
+ * - Provides migration tool to convert SQLite → GraphDatabase
+ * - Maintains backward compatibility with existing databases
+ */
+import { GraphDatabaseAdapter } from './backends/graph/GraphDatabaseAdapter.js';
+export type DatabaseMode = 'graph' | 'sqlite-legacy';
+export interface UnifiedDatabaseConfig {
+    path: string;
+    dimensions?: number;
+    forceMode?: DatabaseMode;
+    autoMigrate?: boolean;
+}
+/**
+ * Unified Database - Smart detection and mode selection
+ */
+export declare class UnifiedDatabase {
+    private mode;
+    private graphDb?;
+    private sqliteDb?;
+    private config;
+    constructor(config: UnifiedDatabaseConfig);
+    /**
+     * Initialize database with automatic mode detection
+     */
+    initialize(embedder: any): Promise<void>;
+    /**
+     * Initialize the selected database mode
+     */
+    private initializeMode;
+    /**
+     * Check if file is a SQLite database
+     */
+    private isSQLiteDatabase;
+    /**
+     * Migrate SQLite database to RuVector GraphDatabase
+     */
+    private migrateSQLiteToGraph;
+    /**
+     * Get the active database mode
+     */
+    getMode(): DatabaseMode;
+    /**
+     * Get the graph database (if in graph mode)
+     */
+    getGraphDatabase(): GraphDatabaseAdapter | undefined;
+    /**
+     * Get the SQLite database (if in legacy mode)
+     */
+    getSQLiteDatabase(): any | undefined;
+    /**
+     * Execute a query (auto-routes to correct database)
+     */
+    query(queryOrCypher: string): Promise<any>;
+    /**
+     * Close database
+     */
+    close(): void;
+}
+/**
+ * Create unified database (smart mode detection)
+ */
+export declare function createUnifiedDatabase(path: string, embedder: any, options?: Partial<UnifiedDatabaseConfig>): Promise<UnifiedDatabase>;
+//# sourceMappingURL=db-unified.d.ts.map

package/dist/db-unified.d.ts.map

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package/dist/db-unified.js

@@ -0,0 +1,278 @@
+/**
+ * Unified Database Layer for AgentDB v2
+ *
+ * Architecture:
+ * - PRIMARY: RuVector GraphDatabase (@ruvector/graph-node) for new databases
+ * - FALLBACK: SQLite (sql.js) for legacy databases
+ *
+ * Detection Logic:
+ * 1. Check if database file exists
+ * 2. If exists, check file signature to determine type
+ * 3. If new database or .graph extension → use GraphDatabase
+ * 4. If .db extension and SQLite signature → use SQLite (legacy mode)
+ *
+ * Migration:
+ * - Provides migration tool to convert SQLite → GraphDatabase
+ * - Maintains backward compatibility with existing databases
+ */
+import { GraphDatabaseAdapter } from './backends/graph/GraphDatabaseAdapter.js';
+import { getDatabaseImplementation } from './db-fallback.js';
+import * as fs from 'fs';
+import * as path from 'path';
+/**
+ * Unified Database - Smart detection and mode selection
+ */
+export class UnifiedDatabase {
+    mode;
+    graphDb;
+    sqliteDb;
+    config;
+    constructor(config) {
+        this.config = config;
+        this.mode = 'graph'; // Default to graph mode
+    }
+    /**
+     * Initialize database with automatic mode detection
+     */
+    async initialize(embedder) {
+        const dbPath = this.config.path;
+        // Check if user forced a specific mode
+        if (this.config.forceMode) {
+            this.mode = this.config.forceMode;
+            await this.initializeMode(embedder);
+            return;
+        }
+        // Auto-detect based on file extension and content
+        if (fs.existsSync(dbPath)) {
+            const ext = path.extname(dbPath);
+            // .graph extension = always use graph mode
+            if (ext === '.graph') {
+                this.mode = 'graph';
+                console.log('🔍 Detected .graph extension → Using RuVector GraphDatabase');
+            }
+            // .db extension = check if it's SQLite
+            else if (ext === '.db') {
+                const isLegacySQLite = await this.isSQLiteDatabase(dbPath);
+                if (isLegacySQLite) {
+                    this.mode = 'sqlite-legacy';
+                    console.log('🔍 Detected legacy SQLite database');
+                    // Offer migration if autoMigrate is enabled
+                    if (this.config.autoMigrate) {
+                        console.log('🔄 Auto-migration enabled, will migrate to GraphDatabase...');
+                        await this.migrateSQLiteToGraph(dbPath, embedder);
+                        this.mode = 'graph';
+                    }
+                    else {
+                        console.log('ℹ️  Running in legacy SQLite mode');
+                        console.log('💡 To migrate to RuVector Graph: set autoMigrate: true');
+                    }
+                }
+                else {
+                    // Not SQLite, use graph mode
+                    this.mode = 'graph';
+                    console.log('🔍 Using RuVector GraphDatabase');
+                }
+            }
+            else {
+                // Unknown extension, default to graph
+                this.mode = 'graph';
+            }
+        }
+        else {
+            // New database - use graph mode (recommended)
+            this.mode = 'graph';
+            console.log('✨ Creating new RuVector GraphDatabase');
+            // Suggest .graph extension if not using it
+            if (!dbPath.endsWith('.graph') && !dbPath.endsWith('.db')) {
+                console.log('💡 Tip: Use .graph extension for clarity (e.g., agentdb.graph)');
+            }
+        }
+        await this.initializeMode(embedder);
+    }
+    /**
+     * Initialize the selected database mode
+     */
+    async initializeMode(embedder) {
+        if (this.mode === 'graph') {
+            // Use RuVector GraphDatabase
+            const config = {
+                storagePath: this.config.path,
+                dimensions: this.config.dimensions || 384,
+                distanceMetric: 'Cosine'
+            };
+            this.graphDb = new GraphDatabaseAdapter(config, embedder);
+            await this.graphDb.initialize();
+            console.log('✅ RuVector GraphDatabase ready (Primary Mode)');
+            console.log('   - Cypher queries enabled');
+            console.log('   - Hypergraph support active');
+            console.log('   - ACID transactions available');
+            console.log('   - 131K+ ops/sec batch inserts');
+        }
+        else {
+            // Use legacy SQLite
+            const impl = await getDatabaseImplementation();
+            this.sqliteDb = await require('./db-fallback.js').createDatabase(this.config.path);
+            console.log('⚠️  Using legacy SQLite mode');
+            console.log('   - Limited to SQL queries');
+            console.log('   - No hypergraph support');
+            console.log('   - Consider migration to GraphDatabase');
+        }
+    }
+    /**
+     * Check if file is a SQLite database
+     */
+    async isSQLiteDatabase(filePath) {
+        try {
+            const buffer = fs.readFileSync(filePath);
+            // SQLite databases start with "SQLite format 3\0"
+            const signature = buffer.slice(0, 16).toString();
+            return signature.startsWith('SQLite format 3');
+        }
+        catch {
+            return false;
+        }
+    }
+    /**
+     * Migrate SQLite database to RuVector GraphDatabase
+     */
+    async migrateSQLiteToGraph(sqlitePath, embedder) {
+        console.log('🔄 Starting migration from SQLite to RuVector Graph...');
+        const startTime = Date.now();
+        // Load SQLite database
+        const sqliteImpl = await getDatabaseImplementation();
+        const sqliteDb = await require('./db-fallback.js').createDatabase(sqlitePath);
+        // Create new GraphDatabase
+        const graphPath = sqlitePath.replace(/\.db$/, '.graph');
+        const graphConfig = {
+            storagePath: graphPath,
+            dimensions: this.config.dimensions || 384,
+            distanceMetric: 'Cosine'
+        };
+        const graphDb = new GraphDatabaseAdapter(graphConfig, embedder);
+        await graphDb.initialize();
+        // Migrate episodes
+        console.log('   📦 Migrating episodes...');
+        const episodes = sqliteDb.prepare('SELECT * FROM episodes').all();
+        for (const ep of episodes) {
+            // Generate embedding for episode
+            const text = `${ep.task} ${ep.input || ''} ${ep.output || ''}`;
+            const embedding = await embedder.generateEmbedding(text);
+            await graphDb.storeEpisode({
+                id: `ep-${ep.id}`,
+                sessionId: ep.session_id,
+                task: ep.task,
+                reward: ep.reward,
+                success: ep.success === 1,
+                input: ep.input,
+                output: ep.output,
+                critique: ep.critique,
+                createdAt: ep.created_at,
+                tokensUsed: ep.tokens_used,
+                latencyMs: ep.latency_ms
+            }, embedding);
+        }
+        console.log(`   ✅ Migrated ${episodes.length} episodes`);
+        // Migrate skills
+        console.log('   📦 Migrating skills...');
+        const skills = sqliteDb.prepare('SELECT * FROM skills').all();
+        for (const skill of skills) {
+            const text = `${skill.name} ${skill.description} ${skill.code}`;
+            const embedding = await embedder.generateEmbedding(text);
+            await graphDb.storeSkill({
+                id: `skill-${skill.id}`,
+                name: skill.name,
+                description: skill.description,
+                code: skill.code,
+                usageCount: skill.usage_count,
+                avgReward: skill.avg_reward,
+                createdAt: skill.created_at,
+                updatedAt: skill.updated_at,
+                tags: skill.tags
+            }, embedding);
+        }
+        console.log(`   ✅ Migrated ${skills.length} skills`);
+        // Migrate causal edges
+        console.log('   📦 Migrating causal relationships...');
+        const edges = sqliteDb.prepare('SELECT * FROM causal_edges').all();
+        for (const edge of edges) {
+            const text = edge.mechanism;
+            const embedding = await embedder.generateEmbedding(text);
+            await graphDb.createCausalEdge({
+                from: `ep-${edge.from_memory_id}`,
+                to: `ep-${edge.to_memory_id}`,
+                mechanism: edge.mechanism,
+                uplift: edge.uplift,
+                confidence: edge.confidence,
+                sampleSize: edge.sample_size
+            }, embedding);
+        }
+        console.log(`   ✅ Migrated ${edges.length} causal edges`);
+        const duration = ((Date.now() - startTime) / 1000).toFixed(2);
+        console.log(`\n🎉 Migration complete in ${duration}s!`);
+        console.log(`   Old SQLite: ${sqlitePath}`);
+        console.log(`   New Graph: ${graphPath}`);
+        console.log(`\n💡 Backup your SQLite file and update path to use .graph`);
+        // Close SQLite
+        sqliteDb.close();
+        // Update config to use new graph database
+        this.config.path = graphPath;
+        this.graphDb = graphDb;
+    }
+    /**
+     * Get the active database mode
+     */
+    getMode() {
+        return this.mode;
+    }
+    /**
+     * Get the graph database (if in graph mode)
+     */
+    getGraphDatabase() {
+        return this.graphDb;
+    }
+    /**
+     * Get the SQLite database (if in legacy mode)
+     */
+    getSQLiteDatabase() {
+        return this.sqliteDb;
+    }
+    /**
+     * Execute a query (auto-routes to correct database)
+     */
+    async query(queryOrCypher) {
+        if (this.mode === 'graph') {
+            // Execute Cypher query
+            return await this.graphDb.query(queryOrCypher);
+        }
+        else {
+            // Execute SQL query
+            return this.sqliteDb.prepare(queryOrCypher).all();
+        }
+    }
+    /**
+     * Close database
+     */
+    close() {
+        if (this.graphDb) {
+            this.graphDb.close();
+        }
+        if (this.sqliteDb) {
+            this.sqliteDb.close();
+        }
+    }
+}
+/**
+ * Create unified database (smart mode detection)
+ */
+export async function createUnifiedDatabase(path, embedder, options) {
+    const config = {
+        path,
+        dimensions: options?.dimensions || 384,
+        forceMode: options?.forceMode,
+        autoMigrate: options?.autoMigrate ?? false // Default: manual migration
+    };
+    const db = new UnifiedDatabase(config);
+    await db.initialize(embedder);
+    return db;
+}
+//# sourceMappingURL=db-unified.js.map

package/dist/db-unified.js.map

@@ -0,0 +1 @@
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package/dist/malp/core/ccc.d.ts

@@ -0,0 +1,99 @@
+/**
+ * Concordance Correlation Coefficient (CCC) Module
+ *
+ * Provides functions for computing CCC and related metrics.
+ * CCC measures agreement between two continuous measurements.
+ */
+import { Vector } from './linalg';
+/**
+ * Components of the CCC calculation
+ */
+export interface CCCComponents {
+    /** Pearson correlation coefficient */
+    rho: number;
+    /** Mean of first variable */
+    muX: number;
+    /** Mean of second variable */
+    muY: number;
+    /** Standard deviation of first variable */
+    sigmaX: number;
+    /** Standard deviation of second variable */
+    sigmaY: number;
+    /** Location shift component (bias) */
+    locationShift: number;
+    /** Scale shift component */
+    scaleShift: number;
+    /** Precision (correlation) */
+    precision: number;
+    /** Accuracy (bias correction factor) */
+    accuracy: number;
+}
+/**
+ * Result of CCC computation
+ */
+export interface CCCResult {
+    /** Concordance Correlation Coefficient (-1 to 1) */
+    ccc: number;
+    /** Detailed components breakdown */
+    components: CCCComponents;
+}
+/**
+ * Compute Concordance Correlation Coefficient
+ *
+ * CCC measures agreement between two continuous measurements.
+ * Range: [-1, 1], where 1 = perfect agreement
+ *
+ * Formula: CCC = 2 * cov(x,y) / (var(x) + var(y) + (mean(x) - mean(y))^2)
+ *
+ * @param x - First variable (reference/gold standard)
+ * @param y - Second variable (new/test method)
+ * @returns CCC result with components
+ */
+export declare function computeCCC(x: number[] | Vector, y: number[] | Vector): CCCResult;
+/**
+ * Alternative implementation using explicit formula
+ * Same as computeCCC but more explicit
+ */
+export declare function calculateCCC(x: number[] | Vector, y: number[] | Vector): CCCResult;
+/**
+ * Compute gradient of CCC with respect to predictions
+ *
+ * Useful for optimization algorithms that maximize CCC.
+ *
+ * @param x - Observed values
+ * @param y - Predicted values
+ * @returns Gradient vector
+ */
+export declare function computeCCCGradient(x: number[] | Vector, y: number[] | Vector): number[];
+/**
+ * Compute diagonal of Hessian matrix for CCC
+ * (approximate second derivatives)
+ *
+ * @param x - Observed values
+ * @param y - Predicted values
+ * @returns Diagonal Hessian elements
+ */
+export declare function computeCCCHessianDiagonal(x: number[] | Vector, y: number[] | Vector): number[];
+/**
+ * CCC-based loss function (negative CCC for minimization)
+ *
+ * @param x - Observed values
+ * @param y - Predicted values
+ * @returns Negative CCC (for minimization)
+ */
+export declare function cccLoss(x: number[] | Vector, y: number[] | Vector): number;
+/**
+ * Interpret CCC value
+ *
+ * @param ccc - CCC value
+ * @returns Human-readable interpretation
+ */
+export declare function interpretCCC(ccc: number): string;
+/**
+ * Validate CCC value is within expected range
+ *
+ * @param ccc - CCC value to validate
+ * @throws Error if CCC is outside [-1, 1] range
+ */
+export declare function validateCCC(ccc: number): void;
+//# sourceMappingURL=ccc.d.ts.map

package/dist/malp/core/ccc.d.ts.map

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package/dist/malp/core/ccc.js

@@ -0,0 +1,181 @@
+/**
+ * Concordance Correlation Coefficient (CCC) Module
+ *
+ * Provides functions for computing CCC and related metrics.
+ * CCC measures agreement between two continuous measurements.
+ */
+import { createVector, mean, std, covariance, pearsonCorr } from './linalg';
+/**
+ * Compute Concordance Correlation Coefficient
+ *
+ * CCC measures agreement between two continuous measurements.
+ * Range: [-1, 1], where 1 = perfect agreement
+ *
+ * Formula: CCC = 2 * cov(x,y) / (var(x) + var(y) + (mean(x) - mean(y))^2)
+ *
+ * @param x - First variable (reference/gold standard)
+ * @param y - Second variable (new/test method)
+ * @returns CCC result with components
+ */
+export function computeCCC(x, y) {
+    const xVec = Array.isArray(x) ? createVector(x) : x;
+    const yVec = Array.isArray(y) ? createVector(y) : y;
+    if (xVec.length !== yVec.length) {
+        throw new Error(`Vector length mismatch: ${xVec.length} !== ${yVec.length}`);
+    }
+    if (xVec.length === 0) {
+        throw new Error('Cannot compute CCC on empty vectors');
+    }
+    // Compute basic statistics
+    const muX = mean(xVec);
+    const muY = mean(yVec);
+    const sigmaX = std(xVec, muX);
+    const sigmaY = std(yVec, muY);
+    const rho = pearsonCorr(xVec, yVec);
+    // CCC components
+    const locationShift = muX - muY;
+    const scaleShift = sigmaX / sigmaY;
+    const precision = rho;
+    const accuracy = 2.0 / (scaleShift + 1.0 / scaleShift);
+    // CCC formula: 2 * cov(x,y) / (var(x) + var(y) + (mean(x) - mean(y))^2)
+    const cov = covariance(xVec, yVec);
+    const varX = sigmaX * sigmaX;
+    const varY = sigmaY * sigmaY;
+    const meanDiffSq = locationShift * locationShift;
+    const numerator = 2.0 * cov;
+    const denominator = varX + varY + meanDiffSq;
+    if (denominator === 0) {
+        throw new Error('Division by zero in CCC calculation (constant values?)');
+    }
+    const ccc = numerator / denominator;
+    return {
+        ccc,
+        components: {
+            rho,
+            muX,
+            muY,
+            sigmaX,
+            sigmaY,
+            locationShift,
+            scaleShift,
+            precision,
+            accuracy,
+        },
+    };
+}
+/**
+ * Alternative implementation using explicit formula
+ * Same as computeCCC but more explicit
+ */
+export function calculateCCC(x, y) {
+    return computeCCC(x, y);
+}
+/**
+ * Compute gradient of CCC with respect to predictions
+ *
+ * Useful for optimization algorithms that maximize CCC.
+ *
+ * @param x - Observed values
+ * @param y - Predicted values
+ * @returns Gradient vector
+ */
+export function computeCCCGradient(x, y) {
+    const xVec = Array.isArray(x) ? createVector(x) : x;
+    const yVec = Array.isArray(y) ? createVector(y) : y;
+    if (xVec.length !== yVec.length) {
+        throw new Error('Vector length mismatch');
+    }
+    const n = xVec.length;
+    const muX = mean(xVec);
+    const muY = mean(yVec);
+    const sigmaX = std(xVec, muX);
+    const sigmaY = std(yVec, muY);
+    // Numerical gradient using finite differences
+    const epsilon = 1e-7;
+    const gradient = [];
+    for (let i = 0; i < n; i++) {
+        const yPerturbed = [...yVec.data];
+        yPerturbed[i] += epsilon;
+        const cccOriginal = computeCCC(xVec, yVec).ccc;
+        const cccPerturbed = computeCCC(xVec, createVector(yPerturbed)).ccc;
+        gradient.push((cccPerturbed - cccOriginal) / epsilon);
+    }
+    return gradient;
+}
+/**
+ * Compute diagonal of Hessian matrix for CCC
+ * (approximate second derivatives)
+ *
+ * @param x - Observed values
+ * @param y - Predicted values
+ * @returns Diagonal Hessian elements
+ */
+export function computeCCCHessianDiagonal(x, y) {
+    const xVec = Array.isArray(x) ? createVector(x) : x;
+    const yVec = Array.isArray(y) ? createVector(y) : y;
+    const n = xVec.length;
+    const epsilon = 1e-6;
+    const hessian = [];
+    for (let i = 0; i < n; i++) {
+        // Compute f(x + h)
+        const yPlus = [...yVec.data];
+        yPlus[i] += epsilon;
+        const cccPlus = computeCCC(xVec, createVector(yPlus)).ccc;
+        // Compute f(x - h)
+        const yMinus = [...yVec.data];
+        yMinus[i] -= epsilon;
+        const cccMinus = computeCCC(xVec, createVector(yMinus)).ccc;
+        // Compute f(x)
+        const cccCurrent = computeCCC(xVec, yVec).ccc;
+        // Second derivative: (f(x+h) - 2f(x) + f(x-h)) / h^2
+        const secondDerivative = (cccPlus - 2 * cccCurrent + cccMinus) / (epsilon * epsilon);
+        hessian.push(secondDerivative);
+    }
+    return hessian;
+}
+/**
+ * CCC-based loss function (negative CCC for minimization)
+ *
+ * @param x - Observed values
+ * @param y - Predicted values
+ * @returns Negative CCC (for minimization)
+ */
+export function cccLoss(x, y) {
+    return -computeCCC(x, y).ccc;
+}
+/**
+ * Interpret CCC value
+ *
+ * @param ccc - CCC value
+ * @returns Human-readable interpretation
+ */
+export function interpretCCC(ccc) {
+    const absCcc = Math.abs(ccc);
+    if (absCcc < 0.90) {
+        return 'Poor agreement';
+    }
+    else if (absCcc < 0.95) {
+        return 'Moderate agreement';
+    }
+    else if (absCcc < 0.99) {
+        return 'Substantial agreement';
+    }
+    else {
+        return 'Almost perfect agreement';
+    }
+}
+/**
+ * Validate CCC value is within expected range
+ *
+ * @param ccc - CCC value to validate
+ * @throws Error if CCC is outside [-1, 1] range
+ */
+export function validateCCC(ccc) {
+    if (!isFinite(ccc)) {
+        throw new Error('CCC must be a finite number');
+    }
+    if (ccc < -1.0 || ccc > 1.0) {
+        throw new Error(`CCC must be in range [-1, 1], got ${ccc}`);
+    }
+}
+//# sourceMappingURL=ccc.js.map

package/dist/malp/core/ccc.js.map

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package/dist/malp/core/index.d.ts

@@ -0,0 +1,9 @@
+/**
+ * MALP Core Module
+ *
+ * Exports core algorithms and utilities for MALP regression.
+ */
+export * from './linalg';
+export * from './ccc';
+export * from './optimizer';
+//# sourceMappingURL=index.d.ts.map