@sashabogi/foundation 2.2.0 → 2.3.1

package/dist/tools/gaia/transcript-ingester.d.ts

@@ -0,0 +1,81 @@
+/**
+ * Transcript Ingester
+ *
+ * Walks ~/.claude/projects/**‌/*.jsonl, parses Claude Code conversation
+ * transcripts, and indexes human + assistant prose into Gaia's FTS5 store.
+ *
+ * Design:
+ * - Streams JSONL line-by-line (never loads full file into memory)
+ * - Incremental: tracks last-ingested byte offset per file in SQLite
+ * - Dedupes on (file_path, message_index) to survive re-runs
+ * - Skips noise: tool_result, system messages, sidechain, pure tool_use-only turns
+ */
+import Database from 'better-sqlite3';
+import type { MemoriaStorage } from './storage.js';
+export interface IngestOptions {
+    /** Root directory to walk. Defaults to ~/.claude/projects */
+    rootDir?: string;
+    /** Substring to match against project slug (e.g. "foundation") */
+    projectFilter?: string;
+    /** Only ingest messages newer than this ISO timestamp */
+    since?: string;
+    /** Walk and report without writing to DB */
+    dryRun?: boolean;
+}
+export interface IngestStats {
+    filesFound: number;
+    filesSkipped: number;
+    messagesIngested: number;
+    messagesSkipped: number;
+    bytesProcessed: number;
+    projectSlugs: string[];
+    dateRange: {
+        earliest: string | null;
+        latest: string | null;
+    };
+    parseErrors: number;
+    parseErrorSamples: string[];
+    dryRun: boolean;
+}
+/** A single parsed message ready for indexing */
+export interface ParsedMessage {
+    sessionId: string;
+    messageIndex: number;
+    timestamp: number;
+    role: 'user' | 'assistant';
+    text: string;
+    projectSlug: string;
+    cwd: string | null;
+    filePath: string;
+    lineOffset: number;
+}
+export declare const INGEST_STATE_DDL = "\n  CREATE TABLE IF NOT EXISTS transcript_ingest_state (\n    file_path TEXT NOT NULL PRIMARY KEY,\n    last_byte_offset INTEGER NOT NULL DEFAULT 0,\n    last_ingested_at INTEGER NOT NULL,\n    messages_ingested INTEGER NOT NULL DEFAULT 0\n  );\n\n  CREATE TABLE IF NOT EXISTS transcript_dedup (\n    file_path TEXT NOT NULL,\n    message_index INTEGER NOT NULL,\n    memory_id TEXT NOT NULL,\n    PRIMARY KEY (file_path, message_index)\n  );\n\n  CREATE INDEX IF NOT EXISTS idx_dedup_file ON transcript_dedup(file_path);\n";
+export declare class TranscriptIngester {
+    private db;
+    private memoria;
+    constructor(memoriaDb: Database.Database, memoria: MemoriaStorage);
+    private ensureSchema;
+    ingest(options?: IngestOptions): Promise<IngestStats>;
+    private collectJsonlFiles;
+    private processFile;
+    private streamFile;
+    private updateIngestState;
+    private updateDateRange;
+    /** Returns ingest state rows for testing incremental behavior */
+    getIngestState(): Array<{
+        file_path: string;
+        last_byte_offset: number;
+        messages_ingested: number;
+    }>;
+    /** Returns dedup row count for a given file */
+    getDedupCount(filePath: string): number;
+    /** Nano-id helper (re-exported so tests can use it) */
+    static generateId(): string;
+}
+/**
+ * MemoriaStorage keeps its `db` private. We expose it through this module
+ * by accepting the db instance directly (tests pass an in-memory DB;
+ * the MCP tool passes the real db through getInternalDb).
+ */
+export declare function createIngester(db: Database.Database, memoria: MemoriaStorage): TranscriptIngester;
+//# sourceMappingURL=transcript-ingester.d.ts.map

package/dist/tools/gaia/transcript-ingester.d.ts.map

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package/dist/tools/gaia/transcript-ingester.js

@@ -0,0 +1,418 @@
+/**
+ * Transcript Ingester
+ *
+ * Walks ~/.claude/projects/**‌/*.jsonl, parses Claude Code conversation
+ * transcripts, and indexes human + assistant prose into Gaia's FTS5 store.
+ *
+ * Design:
+ * - Streams JSONL line-by-line (never loads full file into memory)
+ * - Incremental: tracks last-ingested byte offset per file in SQLite
+ * - Dedupes on (file_path, message_index) to survive re-runs
+ * - Skips noise: tool_result, system messages, sidechain, pure tool_use-only turns
+ */
+import { createReadStream, existsSync, readdirSync, statSync } from 'fs';
+import { join, basename } from 'path';
+import { homedir } from 'os';
+import { createInterface } from 'readline';
+import { nanoid } from 'nanoid';
+// =============================================================================
+// Schema helpers — call against the MemoriaStorage db instance (accessed via
+// the exposed `getDb` accessor we add to storage, or by passing db directly)
+// =============================================================================
+export const INGEST_STATE_DDL = `
+  CREATE TABLE IF NOT EXISTS transcript_ingest_state (
+    file_path TEXT NOT NULL PRIMARY KEY,
+    last_byte_offset INTEGER NOT NULL DEFAULT 0,
+    last_ingested_at INTEGER NOT NULL,
+    messages_ingested INTEGER NOT NULL DEFAULT 0
+  );
+
+  CREATE TABLE IF NOT EXISTS transcript_dedup (
+    file_path TEXT NOT NULL,
+    message_index INTEGER NOT NULL,
+    memory_id TEXT NOT NULL,
+    PRIMARY KEY (file_path, message_index)
+  );
+
+  CREATE INDEX IF NOT EXISTS idx_dedup_file ON transcript_dedup(file_path);
+`;
+// =============================================================================
+// JSONL parsing helpers
+// =============================================================================
+/**
+ * Extract plain text from Claude Code message content.
+ * Content may be a plain string or an array of content blocks.
+ * We only keep `text` blocks — tool_use and tool_result blocks are dropped.
+ */
+function extractText(content) {
+    if (typeof content === 'string') {
+        const trimmed = content.trim();
+        return trimmed.length > 0 ? trimmed : null;
+    }
+    if (!Array.isArray(content))
+        return null;
+    const parts = [];
+    for (const block of content) {
+        if (typeof block !== 'object' || block === null)
+            continue;
+        const b = block;
+        if (b['type'] === 'text' && typeof b['text'] === 'string') {
+            const t = b['text'].trim();
+            if (t.length > 0)
+                parts.push(t);
+        }
+        // Explicitly skip: tool_use, tool_result, image, document, etc.
+    }
+    return parts.length > 0 ? parts.join('\n\n') : null;
+}
+/**
+ * Parse a single JSONL line into a ParsedMessage or null if it should be
+ * skipped (noise, metadata, sidechain, system).
+ */
+function parseLine(rawLine, lineIndex, filePath, projectSlug, sinceMs) {
+    let obj;
+    try {
+        obj = JSON.parse(rawLine);
+    }
+    catch {
+        return null;
+    }
+    const type = obj['type'];
+    // Only process user + assistant prose turns
+    if (type !== 'user' && type !== 'assistant')
+        return null;
+    // Skip sidechain messages (sub-agent internal turns)
+    if (obj['isSidechain'] === true)
+        return null;
+    // Require a message wrapper
+    const msg = obj['message'];
+    if (typeof msg !== 'object' || msg === null)
+        return null;
+    const msgObj = msg;
+    const role = msgObj['role'];
+    if (role !== 'user' && role !== 'assistant')
+        return null;
+    const text = extractText(msgObj['content']);
+    if (!text)
+        return null;
+    // Parse timestamp — field is "timestamp" on both user and assistant rows
+    let timestamp = 0;
+    const ts = obj['timestamp'];
+    if (typeof ts === 'string') {
+        const parsed = Date.parse(ts);
+        if (!isNaN(parsed))
+            timestamp = parsed;
+    }
+    else if (typeof ts === 'number') {
+        timestamp = ts;
+    }
+    // Since filter
+    if (sinceMs !== null && timestamp > 0 && timestamp < sinceMs)
+        return null;
+    const sessionId = typeof obj['sessionId'] === 'string' ? obj['sessionId'] : 'unknown';
+    const cwd = typeof obj['cwd'] === 'string' ? obj['cwd'] : null;
+    return {
+        sessionId,
+        messageIndex: lineIndex,
+        timestamp,
+        role: role,
+        text,
+        projectSlug,
+        cwd,
+        filePath,
+        lineOffset: lineIndex,
+    };
+}
+// =============================================================================
+// Project slug extraction
+// =============================================================================
+/**
+ * Derive human-readable project name from the JSONL path.
+ * ~/.claude/projects/<slug>/<uuid>.jsonl → slug
+ */
+function slugFromPath(filePath, rootDir) {
+    // Strip rootDir prefix
+    const relative = filePath.startsWith(rootDir)
+        ? filePath.slice(rootDir.length + 1)
+        : filePath;
+    // First path component is the project slug
+    const slug = relative.split('/')[0] ?? basename(filePath);
+    return slug;
+}
+// =============================================================================
+// Core ingester
+// =============================================================================
+export class TranscriptIngester {
+    db;
+    memoria;
+    constructor(memoriaDb, memoria) {
+        this.db = memoriaDb;
+        this.memoria = memoria;
+        this.ensureSchema();
+    }
+    ensureSchema() {
+        this.db.exec(INGEST_STATE_DDL);
+    }
+    // ---------------------------------------------------------------------------
+    // Public API
+    // ---------------------------------------------------------------------------
+    async ingest(options = {}) {
+        const { rootDir = join(homedir(), '.claude', 'projects'), projectFilter, since, dryRun = false, } = options;
+        const sinceMs = since ? Date.parse(since) : null;
+        if (since && (sinceMs === null || isNaN(sinceMs))) {
+            throw new Error(`Invalid since timestamp: ${since}`);
+        }
+        const stats = {
+            filesFound: 0,
+            filesSkipped: 0,
+            messagesIngested: 0,
+            messagesSkipped: 0,
+            bytesProcessed: 0,
+            projectSlugs: [],
+            dateRange: { earliest: null, latest: null },
+            parseErrors: 0,
+            parseErrorSamples: [],
+            dryRun,
+        };
+        if (!existsSync(rootDir)) {
+            return stats;
+        }
+        // Walk rootDir/slug/*.jsonl
+        const slugSet = new Set();
+        const jsonlFiles = this.collectJsonlFiles(rootDir, projectFilter);
+        for (const filePath of jsonlFiles) {
+            const slug = slugFromPath(filePath, rootDir);
+            slugSet.add(slug);
+            stats.filesFound++;
+            try {
+                await this.processFile(filePath, slug, sinceMs, dryRun, stats);
+            }
+            catch (err) {
+                stats.parseErrors++;
+                if (stats.parseErrorSamples.length < 3) {
+                    stats.parseErrorSamples.push(`${filePath}: ${err instanceof Error ? err.message : String(err)}`);
+                }
+            }
+        }
+        stats.projectSlugs = Array.from(slugSet).sort();
+        return stats;
+    }
+    // ---------------------------------------------------------------------------
+    // File collection
+    // ---------------------------------------------------------------------------
+    collectJsonlFiles(rootDir, projectFilter) {
+        const results = [];
+        let slugDirs;
+        try {
+            slugDirs = readdirSync(rootDir);
+        }
+        catch {
+            return results;
+        }
+        for (const slug of slugDirs) {
+            if (projectFilter && !slug.includes(projectFilter))
+                continue;
+            const slugPath = join(rootDir, slug);
+            let isDir = false;
+            try {
+                isDir = statSync(slugPath).isDirectory();
+            }
+            catch {
+                continue;
+            }
+            if (!isDir)
+                continue;
+            let entries;
+            try {
+                entries = readdirSync(slugPath);
+            }
+            catch {
+                continue;
+            }
+            for (const entry of entries) {
+                if (entry.endsWith('.jsonl')) {
+                    results.push(join(slugPath, entry));
+                }
+            }
+        }
+        return results;
+    }
+    // ---------------------------------------------------------------------------
+    // Per-file processing
+    // ---------------------------------------------------------------------------
+    async processFile(filePath, projectSlug, sinceMs, dryRun, stats) {
+        // Get last known offset for incremental processing
+        const stateRow = this.db.prepare(`SELECT last_byte_offset FROM transcript_ingest_state WHERE file_path = ?`).get(filePath);
+        const startOffset = stateRow?.last_byte_offset ?? 0;
+        // Get current file size to determine if there's new content
+        let fileSize = 0;
+        try {
+            fileSize = statSync(filePath).size;
+        }
+        catch {
+            stats.filesSkipped++;
+            return;
+        }
+        if (fileSize <= startOffset) {
+            stats.filesSkipped++;
+            return;
+        }
+        // Stream the file from start (we need to track line indices from 0 for dedup)
+        const messages = await this.streamFile(filePath, projectSlug, sinceMs, startOffset, stats);
+        if (messages.length === 0) {
+            // Update state even if no messages were parseable (to advance offset)
+            if (!dryRun) {
+                this.updateIngestState(filePath, fileSize, 0);
+            }
+            return;
+        }
+        if (dryRun) {
+            stats.messagesIngested += messages.length;
+            this.updateDateRange(stats, messages);
+            return;
+        }
+        // Insert in a transaction for atomicity
+        const insertCount = this.db.transaction(() => {
+            let inserted = 0;
+            for (const msg of messages) {
+                // Check dedup
+                const exists = this.db.prepare(`SELECT 1 FROM transcript_dedup WHERE file_path = ? AND message_index = ?`).get(msg.filePath, msg.messageIndex);
+                if (exists) {
+                    stats.messagesSkipped++;
+                    continue;
+                }
+                // Build memory content — prefix with role for search quality
+                const roleLabel = msg.role === 'user' ? '[User]' : '[Assistant]';
+                const content = `${roleLabel} ${msg.text}`;
+                // Save into Gaia memory store
+                const memory = this.memoria.saveMemory({
+                    tier: 'project',
+                    content,
+                    tags: ['transcript', msg.role, msg.projectSlug],
+                    related_files: [],
+                    session_id: msg.sessionId,
+                    project_path: msg.cwd ?? msg.projectSlug,
+                    metadata: {
+                        source: 'transcript',
+                        session_id: msg.sessionId,
+                        message_index: msg.messageIndex,
+                        role: msg.role,
+                        project_slug: msg.projectSlug,
+                        file_path: msg.filePath,
+                        line_offset: msg.lineOffset,
+                        original_timestamp: msg.timestamp > 0 ? new Date(msg.timestamp).toISOString() : null,
+                    },
+                });
+                // Record dedup entry
+                this.db.prepare(`INSERT OR IGNORE INTO transcript_dedup (file_path, message_index, memory_id) VALUES (?, ?, ?)`).run(msg.filePath, msg.messageIndex, memory.id);
+                inserted++;
+                stats.messagesIngested++;
+            }
+            return inserted;
+        })();
+        // Update incremental state to the current file size
+        this.updateIngestState(filePath, fileSize, insertCount);
+        this.updateDateRange(stats, messages);
+        stats.bytesProcessed += fileSize - startOffset;
+    }
+    // ---------------------------------------------------------------------------
+    // Streaming JSONL parser
+    // ---------------------------------------------------------------------------
+    streamFile(filePath, projectSlug, sinceMs, startOffset, stats) {
+        return new Promise((resolve, reject) => {
+            const messages = [];
+            // We always read from byte 0 to maintain correct lineIndex for dedup.
+            // Lines before startOffset are checked against dedup table and skipped
+            // in processFile, but we need their indices. For very large files already
+            // fully ingested, startOffset == fileSize so we return early above.
+            // The cost here is line counting from the start — acceptable since we
+            // only reach this if there's new content beyond the last offset.
+            const stream = createReadStream(filePath, { encoding: 'utf8' });
+            const rl = createInterface({ input: stream, crlfDelay: Infinity });
+            let lineIndex = 0;
+            let currentByteOffset = 0;
+            rl.on('line', (rawLine) => {
+                const lineByteLength = Buffer.byteLength(rawLine + '\n', 'utf8');
+                const lineStartOffset = currentByteOffset;
+                currentByteOffset += lineByteLength;
+                // Lines within already-ingested region: skip parsing but increment index
+                if (currentByteOffset <= startOffset) {
+                    lineIndex++;
+                    return;
+                }
+                // Parse line
+                let parsed = null;
+                try {
+                    parsed = parseLine(rawLine, lineIndex, filePath, projectSlug, sinceMs);
+                }
+                catch (err) {
+                    stats.parseErrors++;
+                    if (stats.parseErrorSamples.length < 3) {
+                        stats.parseErrorSamples.push(`${filePath}:${lineIndex}: ${err instanceof Error ? err.message : String(err)}`);
+                    }
+                }
+                if (parsed) {
+                    messages.push(parsed);
+                }
+                lineIndex++;
+            });
+            rl.on('close', () => resolve(messages));
+            rl.on('error', reject);
+            stream.on('error', reject);
+        });
+    }
+    // ---------------------------------------------------------------------------
+    // State tracking
+    // ---------------------------------------------------------------------------
+    updateIngestState(filePath, byteOffset, inserted) {
+        this.db.prepare(`
+      INSERT INTO transcript_ingest_state (file_path, last_byte_offset, last_ingested_at, messages_ingested)
+      VALUES (?, ?, ?, ?)
+      ON CONFLICT(file_path) DO UPDATE SET
+        last_byte_offset = excluded.last_byte_offset,
+        last_ingested_at = excluded.last_ingested_at,
+        messages_ingested = messages_ingested + excluded.messages_ingested
+    `).run(filePath, byteOffset, Date.now(), inserted);
+    }
+    updateDateRange(stats, messages) {
+        for (const msg of messages) {
+            if (msg.timestamp <= 0)
+                continue;
+            const iso = new Date(msg.timestamp).toISOString();
+            if (!stats.dateRange.earliest || iso < stats.dateRange.earliest) {
+                stats.dateRange.earliest = iso;
+            }
+            if (!stats.dateRange.latest || iso > stats.dateRange.latest) {
+                stats.dateRange.latest = iso;
+            }
+        }
+    }
+    // ---------------------------------------------------------------------------
+    // Utility: exposed for tests
+    // ---------------------------------------------------------------------------
+    /** Returns ingest state rows for testing incremental behavior */
+    getIngestState() {
+        return this.db.prepare(`SELECT file_path, last_byte_offset, messages_ingested FROM transcript_ingest_state`).all();
+    }
+    /** Returns dedup row count for a given file */
+    getDedupCount(filePath) {
+        const row = this.db.prepare(`SELECT COUNT(*) as count FROM transcript_dedup WHERE file_path = ?`).get(filePath);
+        return row.count;
+    }
+    /** Nano-id helper (re-exported so tests can use it) */
+    static generateId() {
+        return `mem_${nanoid()}`;
+    }
+}
+// =============================================================================
+// Standalone helper: build a TranscriptIngester from an existing MemoriaStorage
+// =============================================================================
+/**
+ * MemoriaStorage keeps its `db` private. We expose it through this module
+ * by accepting the db instance directly (tests pass an in-memory DB;
+ * the MCP tool passes the real db through getInternalDb).
+ */
+export function createIngester(db, memoria) {
+    return new TranscriptIngester(db, memoria);
+}
+//# sourceMappingURL=transcript-ingester.js.map

package/dist/tools/gaia/transcript-ingester.js.map

@@ -0,0 +1 @@
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package/dist/vault/sync.d.ts.map

@@ -1 +1 @@
-{"version":3,"file":"sync.d.ts","sourceRoot":"","sources":["../../src/vault/sync.ts"],"names":[],"mappings":"AAAA;;;;;;GAMG;AA0BH,MAAM,WAAW,WAAW;IAC1B,gDAAgD;IAChD,SAAS,EAAE,MAAM,CAAC;IAClB,iDAAiD;IACjD,UAAU,EAAE,MAAM,CAAC;IACnB,iDAAiD;IACjD,aAAa,EAAE,MAAM,CAAC;IACtB,2FAA2F;IAC3F,gBAAgB,CAAC,EAAE,MAAM,CAAC;CAC3B;AAED,MAAM,WAAW,SAAS;IACxB,UAAU,EAAE,MAAM,CAAC;IACnB,cAAc,EAAE,MAAM,CAAC;IACvB,eAAe,EAAE,MAAM,CAAC,MAAM,EAAE,MAAM,CAAC,CAAC;CACzC;AAED,MAAM,WAAW,UAAU;IACzB,OAAO,EAAE,MAAM,CAAC;IAChB,OAAO,EAAE,MAAM,CAAC;IAChB,OAAO,EAAE,MAAM,CAAC;IAChB,OAAO,EAAE,MAAM,CAAC;IAChB,MAAM,EAAE,MAAM,EAAE,CAAC;CAClB;AAoBD,qBAAa,SAAS;IACpB,OAAO,CAAC,MAAM,CAAc;gBAEhB,MAAM,EAAE,WAAW;IAQ/B;;;OAGG;IACG,IAAI,IAAI,OAAO,CAAC,IAAI,CAAC;IAc3B;;;;OAIG;IACG,IAAI,IAAI,OAAO,CAAC,UAAU,CAAC;IAajC;;;OAGG;IACG,eAAe,IAAI,OAAO,CAAC,UAAU,CAAC;IAa5C;;OAEG;IACH,SAAS,IAAI,SAAS,GAAG,IAAI;IAa7B,OAAO,CAAC,aAAa;IAWrB,OAAO,CAAC,aAAa;IAarB,OAAO,CAAC,WAAW;YAQL,gBAAgB;YAwFhB,kBAAkB;IAoEhC;;;OAGG;IACH,OAAO,CAAC,YAAY;CAgDrB"}
+{"version":3,"file":"sync.d.ts","sourceRoot":"","sources":["../../src/vault/sync.ts"],"names":[],"mappings":"AAAA;;;;;;GAMG;AA0BH,MAAM,WAAW,WAAW;IAC1B,gDAAgD;IAChD,SAAS,EAAE,MAAM,CAAC;IAClB,iDAAiD;IACjD,UAAU,EAAE,MAAM,CAAC;IACnB,iDAAiD;IACjD,aAAa,EAAE,MAAM,CAAC;IACtB,2FAA2F;IAC3F,gBAAgB,CAAC,EAAE,MAAM,CAAC;CAC3B;AAED,MAAM,WAAW,SAAS;IACxB,UAAU,EAAE,MAAM,CAAC;IACnB,cAAc,EAAE,MAAM,CAAC;IACvB,eAAe,EAAE,MAAM,CAAC,MAAM,EAAE,MAAM,CAAC,CAAC;CACzC;AAED,MAAM,WAAW,UAAU;IACzB,OAAO,EAAE,MAAM,CAAC;IAChB,OAAO,EAAE,MAAM,CAAC;IAChB,OAAO,EAAE,MAAM,CAAC;IAChB,OAAO,EAAE,MAAM,CAAC;IAChB,MAAM,EAAE,MAAM,EAAE,CAAC;CAClB;AAoBD,qBAAa,SAAS;IACpB,OAAO,CAAC,MAAM,CAAc;gBAEhB,MAAM,EAAE,WAAW;IAQ/B;;;OAGG;IACG,IAAI,IAAI,OAAO,CAAC,IAAI,CAAC;IAc3B;;;;OAIG;IACG,IAAI,IAAI,OAAO,CAAC,UAAU,CAAC;IAajC;;;OAGG;IACG,eAAe,IAAI,OAAO,CAAC,UAAU,CAAC;IAa5C;;OAEG;IACH,SAAS,IAAI,SAAS,GAAG,IAAI;IAa7B,OAAO,CAAC,aAAa;IAWrB,OAAO,CAAC,aAAa;IAarB,OAAO,CAAC,WAAW;YAQL,gBAAgB;YAwFhB,kBAAkB;IAoEhC;;;OAGG;IACH,OAAO,CAAC,YAAY;CA4DrB"}

package/dist/vault/sync.js

@@ -282,18 +282,30 @@ export class VaultSync {
                     walkAndClean(fullPath);
                 }
                 else if (entry.endsWith('.md')) {
-                    // Extract memory id from filename: e.g. mem_abc123-some-slug.md
-                    const match = entry.match(/^(mem_[A-Za-z0-9_-]+?)(?:-|\.md)/);
-                    if (match) {
-                        const id = match[1];
-                        if (id && !currentIds.has(id)) {
-                            try {
-                                unlinkSync(fullPath);
-                                deleted++;
-                            }
-                            catch {
-                                // File may have already been removed — ignore
-                            }
+                    // Recover the memory id from the filename.
+                    //
+                    // Filename format: ${memory.id}-${slug}.md where memory.id = mem_${nanoid()}.
+                    // Because nanoid produces hyphens, both the id and the id-to-slug separator
+                    // use '-', making regex-based extraction ambiguous. Instead, we consult
+                    // state.synced_memories — the authoritative record of every id vault-sync
+                    // has ever written — and check whether any of those ids is a prefix of
+                    // this filename's stem. This is unambiguous and never deletes user files
+                    // that vault-sync did not create.
+                    const stem = entry.slice(0, -3); // strip .md
+                    let matchedId = null;
+                    for (const id of Object.keys(state.synced_memories)) {
+                        if (stem === id || stem.startsWith(id + '-')) {
+                            matchedId = id;
+                            break;
+                        }
+                    }
+                    if (matchedId && !currentIds.has(matchedId)) {
+                        try {
+                            unlinkSync(fullPath);
+                            deleted++;
+                        }
+                        catch {
+                            // File may have already been removed — ignore
                         }
                     }
                 }

package/dist/vault/sync.js.map

@@ -1 +1 @@
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package/package.json

@@ -1,6 +1,6 @@
 {
   "name": "@sashabogi/foundation",
-  "version": "2.2.0",
+  "version": "2.3.1",
   "description": "Unified MCP server for AI-assisted development: codebase intelligence, multi-agent orchestration, and workflow patterns with advanced memory",
   "type": "module",
   "main": "dist/index.js",
@@ -56,6 +56,7 @@
     "@anthropic-ai/sdk": "^0.71.0",
     "@clack/prompts": "^1.0.0",
     "@modelcontextprotocol/sdk": "^1.0.0",
+    "@mongodb-js/zstd": "^7.0.0",
     "better-sqlite3": "^12.0.0",
     "chalk": "^5.3.0",
     "commander": "^12.1.0",