@pella-labs/pinakes 0.1.10 → 0.3.0

package/dist/cli/serve.js

@@ -1,8 +1,7 @@
 #!/usr/bin/env node
 import { randomUUID } from 'node:crypto';
-import { existsSync, mkdirSync, renameSync } from 'node:fs';
-import { homedir } from 'node:os';
-import { dirname, isAbsolute, resolve } from 'node:path';
+import { existsSync, mkdirSync, renameSync, readdirSync, cpSync } from 'node:fs';
+import { dirname, resolve } from 'node:path';
 import { McpServer } from '@modelcontextprotocol/sdk/server/mcp.js';
 import { StdioServerTransport } from '@modelcontextprotocol/sdk/server/stdio.js';
 import { closeDb, openDb } from '../db/client.js';
@@ -10,8 +9,9 @@ import { Repository } from '../db/repository.js';
 import { ChokidarWatcher } from '../ingest/chokidar.js';
 import { IngesterService } from '../ingest/ingester.js';
 import { checkConsistency, listMarkdownFiles } from '../ingest/manifest.js';
-import { kgExecuteToolConfig, makeKgExecuteHandler } from '../mcp/tools/execute.js';
-import { kgSearchToolConfig, makeKgSearchHandler } from '../mcp/tools/search.js';
+import { executeToolConfig, makeExecuteHandler } from '../mcp/tools/execute.js';
+import { searchToolConfig, makeSearchHandler } from '../mcp/tools/search.js';
+import { resolveAbs, projectWikiPath as defaultProjectWikiPath, projectDbPath as defaultProjectDbPath, projectAuditJsonlPath, personalWikiPath as defaultPersonalWikiPath, personalDbPath as defaultPersonalDbPath, personalAuditJsonlPath, projectDataDir, } from '../paths.js';
 import { writeAuditRow } from '../observability/audit.js';
 import { child, logger } from '../observability/logger.js';
 import { installSighupHandler, metrics } from '../observability/metrics.js';
@@ -23,18 +23,19 @@ import { QuickJSExecutor } from '../sandbox/executor.js';
  * through the CLI argv path.
  */
 export async function buildServer(options) {
-    const projectWiki = resolveAbs(options.wikiPath);
+    const projectRoot = resolveAbs(options.projectRoot ?? process.cwd());
+    const projectWiki = resolveAbs(options.wikiPath ?? defaultProjectWikiPath(projectRoot));
     if (!existsSync(projectWiki)) {
         mkdirSync(projectWiki, { recursive: true });
         logger.info({ path: projectWiki }, 'created wiki directory');
     }
-    const projectDbPath = resolveAbs(options.dbPath ?? defaultDbPathFor(projectWiki));
-    migrateLegacyDb(projectWiki, projectDbPath);
-    const profileWiki = resolveAbs(options.profilePath ?? defaultProfileWikiPath());
-    const profileDbPath = resolveAbs(options.profileDbPath ?? defaultDbPathFor(profileWiki));
+    const projectDb = resolveAbs(options.dbPath ?? defaultProjectDbPath(projectRoot));
+    migrateLegacyInProject(projectRoot, projectDb);
+    const profileWiki = resolveAbs(options.profilePath ?? defaultPersonalWikiPath());
+    const profileDbPath = resolveAbs(options.profileDbPath ?? defaultPersonalDbPath());
     const enablePersonal = existsSync(profileWiki);
     // Step 1: open DBs
-    const projectBundle = openDb(projectDbPath);
+    const projectBundle = openDb(projectDb);
     const personalBundle = enablePersonal ? openDb(profileDbPath) : null;
     // Step 2: warm embedder
     const embedder = createEmbedder();
@@ -66,20 +67,34 @@ export async function buildServer(options) {
     const executor = new QuickJSExecutor();
     await executor.warmup();
     // Audit JSONL paths (CLAUDE.md §Security #7: scope-split)
-    const projectAuditJsonl = resolve(dirname(projectDbPath), 'audit.jsonl');
-    const personalAuditJsonl = resolve(homedir(), '.kg/audit.jsonl');
+    const projectAuditJsonl = projectAuditJsonlPath(projectRoot);
+    const personalAuditJsonl = personalAuditJsonlPath();
     const auditCtx = {
         projectBundle,
         personalBundle: personalBundle ?? undefined,
         projectAuditJsonl,
         personalAuditJsonl,
     };
-    const mcp = new McpServer({ name: 'kg-mcp', version: '0.7.0' }, { capabilities: { tools: {} } });
-    mcp.registerTool('kg_search', kgSearchToolConfig, instrumentHandler('kg_search', makeKgSearchHandler({
+    // Tool & server naming — configurable via env for eval variants,
+    // defaults to the winning configuration from eval run (80% selection rate).
+    const searchToolName = process.env.PINAKES_TOOL_SEARCH_NAME ?? 'knowledge_search';
+    const executeToolName = process.env.PINAKES_TOOL_EXECUTE_NAME ?? 'knowledge_query';
+    const serverName = process.env.PINAKES_SERVER_NAME ?? 'project-docs';
+    const instructions = 'IMPORTANT: This project has a curated knowledge base indexed by Pinakes. ' +
+        `ALWAYS use \`${searchToolName}\` as your FIRST action when you need to understand anything about ` +
+        'this project — architecture, conventions, decisions, requirements, data models, ' +
+        'deployment, testing strategy, security, performance constraints, or how subsystems relate. ' +
+        'The knowledge base contains distilled, high-quality documentation that is faster to query ' +
+        'and more token-efficient than reading raw source files with Grep or Read. ' +
+        'Only fall back to Grep/Read/Glob after checking the knowledge base, or when you need ' +
+        'to find exact symbols, read specific source files, or make code changes. ' +
+        `Use \`${executeToolName}\` for advanced operations: graph traversal, gap detection, writing new knowledge.`;
+    const mcp = new McpServer({ name: serverName, version: '0.3.0' }, { capabilities: { tools: {} }, instructions });
+    mcp.registerTool(searchToolName, searchToolConfig, instrumentHandler(searchToolName, makeSearchHandler({
         repository, embedder, bundle: projectBundle,
         personalBundle: personalBundle ?? undefined,
     }), auditCtx));
-    mcp.registerTool('kg_execute', kgExecuteToolConfig, instrumentHandler('kg_execute', makeKgExecuteHandler({
+    mcp.registerTool(executeToolName, executeToolConfig, instrumentHandler(executeToolName, makeExecuteHandler({
         repository, executor, bundle: projectBundle, embedder,
         wikiRoot: projectWiki,
         personalBundle: personalBundle ?? undefined,
@@ -104,7 +119,7 @@ export async function buildServer(options) {
         try {
             const diskFiles = listMarkdownFiles(projectWiki);
             const dbCount = projectBundle.writer
-                .prepare('SELECT COUNT(DISTINCT source_uri) AS cnt FROM kg_nodes WHERE scope = ?')
+                .prepare('SELECT COUNT(DISTINCT source_uri) AS cnt FROM pinakes_nodes WHERE scope = ?')
                 .get('project')?.cnt ?? 0;
             if (diskFiles.length !== dbCount) {
                 logger.info({ diskFiles: diskFiles.length, dbIndexed: dbCount, scope: 'project' }, 'health check: index drift detected — running consistency check');
@@ -113,7 +128,7 @@ export async function buildServer(options) {
             if (personalIngester && personalBundle) {
                 const personalDiskFiles = listMarkdownFiles(profileWiki);
                 const personalDbCount = personalBundle.writer
-                    .prepare('SELECT COUNT(DISTINCT source_uri) AS cnt FROM kg_nodes WHERE scope = ?')
+                    .prepare('SELECT COUNT(DISTINCT source_uri) AS cnt FROM pinakes_nodes WHERE scope = ?')
                     .get('personal')?.cnt ?? 0;
                 if (personalDiskFiles.length !== personalDbCount) {
                     logger.info({ diskFiles: personalDiskFiles.length, dbIndexed: personalDbCount, scope: 'personal' }, 'health check: index drift detected — running consistency check');
@@ -133,7 +148,7 @@ export async function buildServer(options) {
         if (shuttingDown)
             return;
         shuttingDown = true;
-        logger.info({ signal }, 'kg-mcp shutting down');
+        logger.info({ signal }, 'pinakes shutting down');
         try {
             clearInterval(healthCheckTimer);
             await projectWatcher.stop();
@@ -157,7 +172,7 @@ export async function buildServer(options) {
  * handlers, listen forever.
  */
 export async function serveCommand(options) {
-    logger.info({ wikiPath: options.wikiPath }, 'kg-mcp starting');
+    logger.info({ projectRoot: options.projectRoot ?? process.cwd() }, 'pinakes starting');
     installSighupHandler();
     const { server, shutdown } = await buildServer(options);
     const transport = new StdioServerTransport();
@@ -168,7 +183,7 @@ export async function serveCommand(options) {
         void shutdown('SIGINT').then(() => process.exit(0));
     });
     await server.connect(transport);
-    logger.info('kg-mcp listening on stdio');
+    logger.info('pinakes listening on stdio');
 }
 // ----------------------------------------------------------------------------
 // Internals
@@ -190,12 +205,12 @@ async function runStartupConsistency(ingester, wikiDir, scope, writer) {
     if (scope === 'project' && writer) {
         try {
             const orphaned = writer
-                .prepare("SELECT COUNT(*) AS cnt FROM kg_nodes WHERE scope = 'project' AND source_uri LIKE 'file://%'")
+                .prepare("SELECT COUNT(*) AS cnt FROM pinakes_nodes WHERE scope = 'project' AND source_uri LIKE 'file://%'")
                 .get();
             if (orphaned.cnt > 0) {
                 logger.info({ count: orphaned.cnt }, 'migrating legacy absolute-path rows — deleting orphans before re-ingest');
-                writer.exec("DELETE FROM kg_chunks_vec WHERE rowid IN (SELECT c.rowid FROM kg_chunks c JOIN kg_nodes n ON c.node_id = n.id WHERE n.scope = 'project' AND n.source_uri LIKE 'file://%')");
-                writer.exec("DELETE FROM kg_nodes WHERE scope = 'project' AND source_uri LIKE 'file://%'");
+                writer.exec("DELETE FROM pinakes_chunks_vec WHERE rowid IN (SELECT c.rowid FROM pinakes_chunks c JOIN pinakes_nodes n ON c.node_id = n.id WHERE n.scope = 'project' AND n.source_uri LIKE 'file://%')");
+                writer.exec("DELETE FROM pinakes_nodes WHERE scope = 'project' AND source_uri LIKE 'file://%'");
             }
         }
         catch (err) {
@@ -219,22 +234,22 @@ async function runStartupConsistency(ingester, wikiDir, scope, writer) {
         }
     }
 }
-function resolveAbs(p) {
-    return isAbsolute(p) ? p : resolve(process.cwd(), p);
-}
-function defaultDbPathFor(wikiDir) {
-    return resolve(dirname(wikiDir), '.pinakes', 'pinakes.db');
-}
 /**
- * Migrate legacy kg.db (and WAL/shm) from project root into .pinakes/.
+ * Migrate legacy data from in-project `.pinakes/` (or `kg.db`) to the new
+ * centralized `~/.pinakes/projects/<mangled>/` layout.
+ *
+ * Handles three legacy layouts:
+ *   1. `<projectRoot>/kg.db` — Phase 1 flat layout
+ *   2. `<projectRoot>/.pinakes/` — Phase 2 in-project layout
+ *   3. `~/.pharos/profile/` — legacy personal wiki location
  */
-function migrateLegacyDb(wikiPath, newDbPath) {
-    const parent = dirname(resolve(wikiPath));
-    const legacyDb = resolve(parent, 'kg.db');
+function migrateLegacyInProject(projectRoot, newDbPath) {
+    const targetDir = projectDataDir(projectRoot);
+    // 1. Legacy kg.db in project root
+    const legacyDb = resolve(projectRoot, 'kg.db');
     if (existsSync(legacyDb) && !existsSync(newDbPath)) {
         mkdirSync(dirname(newDbPath), { recursive: true });
         renameSync(legacyDb, newDbPath);
-        // Move WAL and SHM files if they exist
         for (const suffix of ['-wal', '-shm']) {
             const old = legacyDb + suffix;
             if (existsSync(old))
@@ -242,12 +257,27 @@ function migrateLegacyDb(wikiPath, newDbPath) {
         }
         logger.info({ from: legacyDb, to: newDbPath }, 'migrated legacy kg.db');
     }
-}
-function defaultProfileWikiPath() {
-    const env = process.env.KG_PROFILE_PATH;
-    if (env)
-        return resolve(env, 'wiki');
-    return resolve(homedir(), '.pharos/profile/wiki');
+    // 2. Legacy in-project .pinakes/ directory
+    const legacyPinakesDir = resolve(projectRoot, '.pinakes');
+    if (existsSync(legacyPinakesDir) && legacyPinakesDir !== targetDir) {
+        mkdirSync(targetDir, { recursive: true });
+        // Copy contents (DB, audit.jsonl, manifest.json, wiki/) to new location
+        // Only migrate files that don't already exist at the target
+        try {
+            const entries = readdirSync(legacyPinakesDir, { withFileTypes: true });
+            for (const entry of entries) {
+                const src = resolve(legacyPinakesDir, entry.name);
+                const dst = resolve(targetDir, entry.name);
+                if (!existsSync(dst)) {
+                    cpSync(src, dst, { recursive: true });
+                    logger.info({ from: src, to: dst }, 'migrated legacy .pinakes entry');
+                }
+            }
+        }
+        catch (err) {
+            logger.warn({ err, from: legacyPinakesDir, to: targetDir }, 'legacy .pinakes/ migration failed — continuing');
+        }
+    }
 }
 /**
  * Wrap a tool handler with:

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package/dist/cli/status.d.ts

@@ -1,18 +1,20 @@
 /**
- * `kg status` — health check for KG-MCP Phase 2.
+ * `pinakes status` — health check for Pinakes Phase 2.
  *
  * Opens the project + personal DBs (if they exist), reports row counts per
  * table, schema version, last full rebuild timestamp, and SQLite version.
  *
- * No DB writes — strictly read-only. Safe to run while a `kg serve` instance
+ * No DB writes — strictly read-only. Safe to run while a `pinakes serve` instance
  * is also running on the same DB (WAL mode + read connection makes this fine).
  */
 export interface StatusOptions {
-    /** Path to project DB. If omitted, defaults to `.pharos/kg.db` from wikiPath if given. */
+    /** Project root directory (default: cwd) */
+    projectRoot?: string;
+    /** Path to project DB override */
     dbPath?: string;
-    /** Path to project wiki dir, used to derive default dbPath if dbPath omitted */
+    /** Path to project wiki dir (unused in new layout, kept for backwards compat) */
     wikiPath?: string;
-    /** Path to personal DB (default: `~/.pharos/profile/kg.db`) */
+    /** Path to personal DB (default: `~/.pinakes/pinakes.db`) */
     profileDbPath?: string;
 }
 export interface ScopeStatus {

package/dist/cli/status.d.ts.map

@@ -1 +1 @@
-{"version":3,"file":"status.d.ts","sourceRoot":"","sources":["../../src/cli/status.ts"],"names":[],"mappings":"AAOA;;;;;;;;GAQG;AAEH,MAAM,WAAW,aAAa;IAC5B,0FAA0F;IAC1F,MAAM,CAAC,EAAE,MAAM,CAAC;IAChB,gFAAgF;IAChF,QAAQ,CAAC,EAAE,MAAM,CAAC;IAClB,+DAA+D;IAC/D,aAAa,CAAC,EAAE,MAAM,CAAC;CACxB;AAED,MAAM,WAAW,WAAW;IAC1B,KAAK,EAAE,SAAS,GAAG,UAAU,CAAC;IAC9B,MAAM,EAAE,MAAM,CAAC;IACf,MAAM,EAAE,OAAO,CAAC;IAChB,aAAa,EAAE,MAAM,GAAG,IAAI,CAAC;IAC7B,eAAe,EAAE,MAAM,GAAG,IAAI,CAAC;IAC/B,aAAa,EAAE,MAAM,GAAG,IAAI,CAAC;IAC7B,SAAS,EAAE,MAAM,CAAC,MAAM,EAAE,MAAM,CAAC,CAAC;CACnC;AAED;;;;GAIG;AACH,wBAAgB,aAAa,CAAC,OAAO,GAAE,aAAkB,GAAG,WAAW,EAAE,CAQxE;AAED;;;;GAIG;AACH,wBAAgB,YAAY,CAAC,QAAQ,EAAE,WAAW,EAAE,GAAG,MAAM,CAqB5D"}
+{"version":3,"file":"status.d.ts","sourceRoot":"","sources":["../../src/cli/status.ts"],"names":[],"mappings":"AAMA;;;;;;;;GAQG;AAEH,MAAM,WAAW,aAAa;IAC5B,4CAA4C;IAC5C,WAAW,CAAC,EAAE,MAAM,CAAC;IACrB,kCAAkC;IAClC,MAAM,CAAC,EAAE,MAAM,CAAC;IAChB,iFAAiF;IACjF,QAAQ,CAAC,EAAE,MAAM,CAAC;IAClB,6DAA6D;IAC7D,aAAa,CAAC,EAAE,MAAM,CAAC;CACxB;AAED,MAAM,WAAW,WAAW;IAC1B,KAAK,EAAE,SAAS,GAAG,UAAU,CAAC;IAC9B,MAAM,EAAE,MAAM,CAAC;IACf,MAAM,EAAE,OAAO,CAAC;IAChB,aAAa,EAAE,MAAM,GAAG,IAAI,CAAC;IAC7B,eAAe,EAAE,MAAM,GAAG,IAAI,CAAC;IAC/B,aAAa,EAAE,MAAM,GAAG,IAAI,CAAC;IAC7B,SAAS,EAAE,MAAM,CAAC,MAAM,EAAE,MAAM,CAAC,CAAC;CACnC;AAED;;;;GAIG;AACH,wBAAgB,aAAa,CAAC,OAAO,GAAE,aAAkB,GAAG,WAAW,EAAE,CAQxE;AAED;;;;GAIG;AACH,wBAAgB,YAAY,CAAC,QAAQ,EAAE,WAAW,EAAE,GAAG,MAAM,CAqB5D"}

package/dist/cli/status.js

@@ -1,19 +1,18 @@
 import { existsSync } from 'node:fs';
-import { homedir } from 'node:os';
-import { dirname, isAbsolute, resolve } from 'node:path';
 import { closeDb, openDb } from '../db/client.js';
-import { KG_TABLES, KG_VIRTUAL_TABLES } from '../db/schema.js';
+import { PINAKES_TABLES, PINAKES_VIRTUAL_TABLES } from '../db/schema.js';
+import { resolveCliDbPath } from '../paths.js';
 /**
  * Build a status report for both scopes. The result is a structured object
  * suitable for both human-readable rendering and JSON output (e.g.
  * `kg status --json`).
  */
 export function statusCommand(options = {}) {
-    const projectDbPath = resolveProjectDb(options);
-    const profileDbPath = resolveProfileDb(options);
+    const projectDb = resolveCliDbPath(options, 'project');
+    const profileDb = resolveCliDbPath(options, 'personal');
     return [
-        inspectScope('project', projectDbPath),
-        inspectScope('personal', profileDbPath),
+        inspectScope('project', projectDb),
+        inspectScope('personal', profileDb),
     ];
 }
 /**
@@ -33,7 +32,7 @@ export function renderStatus(statuses) {
         lines.push(`  sqlite_version: ${s.sqliteVersion ?? '<unknown>'}`);
         lines.push(`  schema_version: ${s.schemaVersion ?? '<absent>'}`);
         lines.push(`  last_full_rebuild: ${s.lastFullRebuild ? new Date(s.lastFullRebuild).toISOString() : '<never>'}`);
-        for (const table of [...KG_TABLES, ...KG_VIRTUAL_TABLES]) {
+        for (const table of [...PINAKES_TABLES, ...PINAKES_VIRTUAL_TABLES]) {
             const count = s.rowCounts[table] ?? 0;
             lines.push(`  ${table.padEnd(20)} ${count}`);
         }
@@ -63,14 +62,14 @@ function inspectScope(scope, dbPath) {
     try {
         status.sqliteVersion = bundle.writer.prepare('SELECT sqlite_version() AS v').get().v;
         const schemaRow = bundle.writer
-            .prepare("SELECT value FROM kg_meta WHERE key = 'schema_version'")
+            .prepare("SELECT value FROM pinakes_meta WHERE key = 'schema_version'")
             .get();
         status.schemaVersion = schemaRow?.value ?? null;
         const rebuildRow = bundle.writer
-            .prepare("SELECT value FROM kg_meta WHERE key = 'last_full_rebuild'")
+            .prepare("SELECT value FROM pinakes_meta WHERE key = 'last_full_rebuild'")
             .get();
         status.lastFullRebuild = rebuildRow ? parseInt(rebuildRow.value, 10) : null;
-        for (const table of [...KG_TABLES, ...KG_VIRTUAL_TABLES]) {
+        for (const table of [...PINAKES_TABLES, ...PINAKES_VIRTUAL_TABLES]) {
             try {
                 const row = bundle.writer.prepare(`SELECT count(*) AS c FROM ${table}`).get();
                 status.rowCounts[table] = row.c;
@@ -86,22 +85,4 @@ function inspectScope(scope, dbPath) {
     }
     return status;
 }
-function resolveProjectDb(options) {
-    if (options.dbPath)
-        return resolveAbs(options.dbPath);
-    if (options.wikiPath) {
-        return resolve(dirname(resolveAbs(options.wikiPath)), '.pinakes', 'pinakes.db');
-    }
-    return resolve(process.cwd(), '.pinakes', 'pinakes.db');
-}
-function resolveProfileDb(options) {
-    if (options.profileDbPath)
-        return resolveAbs(options.profileDbPath);
-    const env = process.env.KG_PROFILE_PATH;
-    const profileDir = env ? resolveAbs(env) : resolve(homedir(), '.pharos/profile');
-    return resolve(profileDir, 'kg.db');
-}
-function resolveAbs(p) {
-    return isAbsolute(p) ? p : resolve(process.cwd(), p);
-}
 //# sourceMappingURL=status.js.map

package/dist/cli/status.js.map

@@ -1 +1 @@
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package/dist/db/client.d.ts

@@ -2,7 +2,7 @@ import { type Database as BetterSqliteDatabase } from 'better-sqlite3';
 import { type BetterSQLite3Database } from 'drizzle-orm/better-sqlite3';
 import * as schema from './schema.js';
 /**
- * SQLite connection management for KG-MCP.
+ * SQLite connection management for Pinakes.
  *
  * **Single-writer + read-pool-of-2** invariant (CLAUDE.md §Architecture #3,
  * §Database Rules #1):
@@ -22,7 +22,7 @@ import * as schema from './schema.js';
  *
  * **sqlite-vec extension** is loaded on every connection so that the vec0
  * virtual table is queryable from any reader and writable by the writer.
- * The migration that creates `kg_chunks_vec` requires the extension to be
+ * The migration that creates `pinakes_chunks_vec` requires the extension to be
  * loaded BEFORE drizzle's `migrate()` runs — this file orders things so
  * that load happens first.
  *
@@ -64,7 +64,7 @@ declare function isAllowedSqliteVersion(version: string): boolean;
 declare function applyPragmas(db: BetterSqliteDatabase): void;
 /**
  * Load the sqlite-vec extension on a connection. Must be called BEFORE any
- * query that touches `kg_chunks_vec`, including the migration that creates
+ * query that touches `pinakes_chunks_vec`, including the migration that creates
  * the virtual table.
  *
  * better-sqlite3 disables loadExtension() by default; we re-enable it on
@@ -80,7 +80,7 @@ declare function loadSqliteVec(db: BetterSqliteDatabase): void;
  *   4. Load sqlite-vec on each connection
  *   5. Verify SQLite version (3.50.4 or ≥3.51.3, never 3.51.0)
  *   6. Run drizzle migrations on the writer
- *   7. Stamp `kg_meta.schema_version='1'` if not yet set
+ *   7. Stamp `pinakes_meta.schema_version='1'` if not yet set
  *
  * Returns a `DbBundle` ready for repository / ingester use.
  *

package/dist/db/client.js

@@ -65,7 +65,7 @@ function applyPragmas(db) {
 }
 /**
  * Load the sqlite-vec extension on a connection. Must be called BEFORE any
- * query that touches `kg_chunks_vec`, including the migration that creates
+ * query that touches `pinakes_chunks_vec`, including the migration that creates
  * the virtual table.
  *
  * better-sqlite3 disables loadExtension() by default; we re-enable it on
@@ -107,7 +107,7 @@ export function openDb(path, options = {}) {
     if (!isAllowedSqliteVersion(versionRow.v)) {
         // Clean up before throwing so we don't leak file handles.
         closeDb({ path: absPath, writer, readers, drizzleWriter: drizzle(writer, { schema }) });
-        throw new Error(`SQLite version ${versionRow.v} is not allowed for KG-MCP — requires 3.50.4 or >=3.51.3 (presearch D18). ` +
+        throw new Error(`SQLite version ${versionRow.v} is not allowed for Pinakes — requires 3.50.4 or >=3.51.3 (presearch D18). ` +
             `better-sqlite3@12.8.0 bundles 3.51.3; if you see this, your better-sqlite3 was compiled against the system sqlite.`);
     }
     // Build the drizzle wrapper before step 6 so migrate() can use it.
@@ -120,7 +120,7 @@ export function openDb(path, options = {}) {
     // Step 7: stamp schema_version=1 if absent. Subsequent phases bump this.
     if (runMigrations) {
         writer
-            .prepare('INSERT OR IGNORE INTO kg_meta (key, value) VALUES (?, ?)')
+            .prepare('INSERT OR IGNORE INTO pinakes_meta (key, value) VALUES (?, ?)')
             .run('schema_version', '2');
     }
     logger.info({ path: absPath, sqliteVersion: versionRow.v }, 'opened SQLite db');

package/dist/db/client.js.map

@@ -1 +1 @@
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package/dist/db/migrations/migrations/0002_rename_kg_to_pinakes.sql

@@ -0,0 +1,49 @@
+-- Rename all kg_* tables to pinakes_* (clean break for v0.2.0 → v0.3.0)
+-- Regular tables use ALTER TABLE RENAME. Virtual tables need special handling.
+
+-- Step 1: Rename regular tables
+ALTER TABLE `kg_audit` RENAME TO `pinakes_audit`;--> statement-breakpoint
+ALTER TABLE `kg_chunks` RENAME TO `pinakes_chunks`;--> statement-breakpoint
+ALTER TABLE `kg_edges` RENAME TO `pinakes_edges`;--> statement-breakpoint
+ALTER TABLE `kg_gaps` RENAME TO `pinakes_gaps`;--> statement-breakpoint
+ALTER TABLE `kg_log` RENAME TO `pinakes_log`;--> statement-breakpoint
+ALTER TABLE `kg_meta` RENAME TO `pinakes_meta`;--> statement-breakpoint
+ALTER TABLE `kg_nodes` RENAME TO `pinakes_nodes`;--> statement-breakpoint
+
+-- Step 2: Drop old FTS5 triggers (they reference the old table names)
+DROP TRIGGER IF EXISTS `kg_chunks_fts_ai`;--> statement-breakpoint
+DROP TRIGGER IF EXISTS `kg_chunks_fts_ad`;--> statement-breakpoint
+DROP TRIGGER IF EXISTS `kg_chunks_fts_au`;--> statement-breakpoint
+
+-- Step 3: Drop and recreate FTS5 virtual table with new content table name
+DROP TABLE IF EXISTS `kg_chunks_fts`;--> statement-breakpoint
+
+CREATE VIRTUAL TABLE `pinakes_chunks_fts` USING fts5(
+  text,
+  content='pinakes_chunks',
+  content_rowid='rowid',
+  tokenize='unicode61 remove_diacritics 2'
+);--> statement-breakpoint
+
+-- Step 4: Recreate FTS5 sync triggers with new names
+CREATE TRIGGER `pinakes_chunks_fts_ai` AFTER INSERT ON `pinakes_chunks` BEGIN
+  INSERT INTO `pinakes_chunks_fts`(`rowid`, `text`) VALUES (new.`rowid`, new.`text`);
+END;--> statement-breakpoint
+
+CREATE TRIGGER `pinakes_chunks_fts_ad` AFTER DELETE ON `pinakes_chunks` BEGIN
+  INSERT INTO `pinakes_chunks_fts`(`pinakes_chunks_fts`, `rowid`, `text`) VALUES('delete', old.`rowid`, old.`text`);
+END;--> statement-breakpoint
+
+CREATE TRIGGER `pinakes_chunks_fts_au` AFTER UPDATE ON `pinakes_chunks` BEGIN
+  INSERT INTO `pinakes_chunks_fts`(`pinakes_chunks_fts`, `rowid`, `text`) VALUES('delete', old.`rowid`, old.`text`);
+  INSERT INTO `pinakes_chunks_fts`(`rowid`, `text`) VALUES (new.`rowid`, new.`text`);
+END;--> statement-breakpoint
+
+-- Step 5: Recreate sqlite-vec virtual table (ALTER TABLE RENAME doesn't
+-- rename vec0's internal shadow tables, so we must drop+create+copy)
+CREATE VIRTUAL TABLE `pinakes_chunks_vec` USING vec0(embedding FLOAT[384]);--> statement-breakpoint
+INSERT INTO `pinakes_chunks_vec`(`rowid`, `embedding`) SELECT `rowid`, `embedding` FROM `kg_chunks_vec`;--> statement-breakpoint
+DROP TABLE IF EXISTS `kg_chunks_vec`;--> statement-breakpoint
+
+-- Step 6: Repopulate FTS5 index from renamed chunks table
+INSERT INTO `pinakes_chunks_fts`(`rowid`, `text`) SELECT `rowid`, `text` FROM `pinakes_chunks`;