gnosys 4.0.0

package/dist/lib/dbSearch.d.ts

@@ -0,0 +1,65 @@
+/**
+ * Gnosys DB Search Adapter — bridges GnosysDB to existing search interfaces.
+ *
+ * When gnosys.db is migrated and available, this adapter replaces:
+ *   - GnosysSearch (FTS5 keyword search)
+ *   - GnosysEmbeddings (vector cosine similarity)
+ *   - GnosysArchive (search in archived memories)
+ *
+ * Implements the same result types so consumers (recall, hybridSearch, ask)
+ * work without modification.
+ */
+import { GnosysDB, DbMemory } from "./db.js";
+import { SearchResult, DiscoverResult } from "./search.js";
+import { HybridSearchResult, SearchMode } from "./hybridSearch.js";
+export declare class GnosysDbSearch {
+    private db;
+    constructor(db: GnosysDB);
+    /**
+     * FTS5 search — compatible with GnosysSearch.search()
+     */
+    search(query: string, limit?: number): SearchResult[];
+    /**
+     * FTS5 discover — compatible with GnosysSearch.discover()
+     */
+    discover(query: string, limit?: number): DiscoverResult[];
+    /**
+     * Hybrid search — all-in-one: FTS5 + optional semantic + archive tier.
+     * Replaces GnosysHybridSearch.hybridSearch() when db is available.
+     */
+    hybridSearch(query: string, limit?: number, mode?: SearchMode, embedQuery?: (text: string) => Promise<Float32Array>): Promise<HybridSearchResult[]>;
+    /**
+     * FTS5 keyword search → HybridSearchResult
+     */
+    private keywordSearch;
+    /**
+     * Semantic search using inline embeddings
+     */
+    private semanticSearch;
+    /**
+     * Search archive tier (memories with tier='archive')
+     */
+    private searchArchiveTier;
+    /**
+     * RRF fusion of keyword + semantic results
+     */
+    private rrfFusion;
+    /**
+     * Load full content for search results (used by Ask engine).
+     * In DB mode, we read directly from the memories table.
+     */
+    loadContent(results: HybridSearchResult[]): HybridSearchResult[];
+    /**
+     * Get a memory by ID (replaces resolver.readMemory for db mode)
+     */
+    getMemory(id: string): DbMemory | null;
+    /**
+     * Check if embeddings exist in the db
+     */
+    hasEmbeddings(): boolean;
+    /**
+     * Get embedding count
+     */
+    embeddingCount(): number;
+}
+//# sourceMappingURL=dbSearch.d.ts.map

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

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package/dist/lib/dbSearch.js

@@ -0,0 +1,239 @@
+/**
+ * Gnosys DB Search Adapter — bridges GnosysDB to existing search interfaces.
+ *
+ * When gnosys.db is migrated and available, this adapter replaces:
+ *   - GnosysSearch (FTS5 keyword search)
+ *   - GnosysEmbeddings (vector cosine similarity)
+ *   - GnosysArchive (search in archived memories)
+ *
+ * Implements the same result types so consumers (recall, hybridSearch, ask)
+ * work without modification.
+ */
+// ─── Cosine similarity for inline embeddings ────────────────────────────
+function cosineSimilarity(a, b) {
+    let dot = 0, normA = 0, normB = 0;
+    for (let i = 0; i < a.length; i++) {
+        dot += a[i] * b[i];
+        normA += a[i] * a[i];
+        normB += b[i] * b[i];
+    }
+    const denom = Math.sqrt(normA) * Math.sqrt(normB);
+    return denom === 0 ? 0 : dot / denom;
+}
+function bufferToFloat32(buf) {
+    return new Float32Array(buf.buffer, buf.byteOffset, buf.byteLength / 4);
+}
+// ─── DB Search Adapter ──────────────────────────────────────────────────
+export class GnosysDbSearch {
+    db;
+    constructor(db) {
+        this.db = db;
+    }
+    /**
+     * FTS5 search — compatible with GnosysSearch.search()
+     */
+    search(query, limit = 20) {
+        const results = this.db.searchFts(query, limit);
+        return results.map((r) => ({
+            relative_path: r.id, // In db mode, we use memory ID as the key
+            title: r.title,
+            snippet: r.snippet,
+            rank: r.rank,
+        }));
+    }
+    /**
+     * FTS5 discover — compatible with GnosysSearch.discover()
+     */
+    discover(query, limit = 20) {
+        const results = this.db.discoverFts(query, limit);
+        return results.map((r) => ({
+            relative_path: r.id, // In db mode, we use memory ID as the key
+            title: r.title,
+            relevance: r.relevance,
+            rank: r.rank,
+        }));
+    }
+    /**
+     * Hybrid search — all-in-one: FTS5 + optional semantic + archive tier.
+     * Replaces GnosysHybridSearch.hybridSearch() when db is available.
+     */
+    async hybridSearch(query, limit = 15, mode = "hybrid", embedQuery) {
+        const RRF_K = 60;
+        // Check if we have embeddings for semantic/hybrid
+        const hasEmbeddings = this.db.getEmbeddingCount() > 0;
+        if ((mode === "hybrid" || mode === "semantic") && !hasEmbeddings) {
+            if (mode === "semantic")
+                return [];
+            mode = "keyword";
+        }
+        let results;
+        if (mode === "keyword") {
+            results = this.keywordSearch(query, limit);
+        }
+        else if (mode === "semantic" && embedQuery) {
+            results = await this.semanticSearch(query, limit, embedQuery);
+        }
+        else if (mode === "hybrid" && embedQuery) {
+            const [kw, sem] = await Promise.all([
+                this.keywordSearch(query, limit * 2),
+                this.semanticSearch(query, limit * 2, embedQuery),
+            ]);
+            results = this.rrfFusion(kw, sem, limit);
+        }
+        else {
+            results = this.keywordSearch(query, limit);
+        }
+        // Fill in from archive tier if active results are thin
+        if (results.length < limit) {
+            const archiveResults = this.searchArchiveTier(query, limit - results.length);
+            const existingIds = new Set(results.map((r) => r.relativePath));
+            const newResults = archiveResults.filter((r) => !existingIds.has(r.relativePath));
+            results = [...results, ...newResults];
+        }
+        return results.slice(0, limit);
+    }
+    /**
+     * FTS5 keyword search → HybridSearchResult
+     */
+    keywordSearch(query, limit) {
+        const results = this.db.searchFts(query, limit);
+        return results.map((r, i) => ({
+            relativePath: r.id,
+            title: r.title,
+            snippet: r.snippet,
+            score: 1 / (60 + i + 1),
+            sources: ["keyword"],
+            memoryId: r.id,
+            fromArchive: false,
+        }));
+    }
+    /**
+     * Semantic search using inline embeddings
+     */
+    async semanticSearch(query, limit, embedQuery) {
+        const queryVec = await embedQuery(query);
+        const allEmbeddings = this.db.getAllEmbeddings();
+        const scored = [];
+        for (const entry of allEmbeddings) {
+            const vec = bufferToFloat32(entry.embedding);
+            const sim = cosineSimilarity(queryVec, vec);
+            scored.push({ id: entry.id, similarity: sim });
+        }
+        scored.sort((a, b) => b.similarity - a.similarity);
+        const topN = scored.slice(0, limit);
+        const results = [];
+        for (const item of topN) {
+            const mem = this.db.getMemory(item.id);
+            if (mem) {
+                results.push({
+                    relativePath: mem.id,
+                    title: mem.title,
+                    snippet: mem.content.substring(0, 200),
+                    score: item.similarity,
+                    sources: ["semantic"],
+                    memoryId: mem.id,
+                    fromArchive: mem.tier === "archive",
+                });
+            }
+        }
+        return results;
+    }
+    /**
+     * Search archive tier (memories with tier='archive')
+     */
+    searchArchiveTier(query, limit) {
+        // Use FTS5 but filter to archive tier after
+        const results = this.db.searchFts(query, limit * 2);
+        const archiveResults = [];
+        for (const r of results) {
+            const mem = this.db.getMemory(r.id);
+            if (mem && mem.tier === "archive") {
+                archiveResults.push({
+                    relativePath: mem.id,
+                    title: mem.title,
+                    snippet: r.snippet,
+                    score: 0.001,
+                    sources: ["archive"],
+                    memoryId: mem.id,
+                    fromArchive: true,
+                });
+                if (archiveResults.length >= limit)
+                    break;
+            }
+        }
+        return archiveResults;
+    }
+    /**
+     * RRF fusion of keyword + semantic results
+     */
+    rrfFusion(keywordResults, semanticResults, limit) {
+        const RRF_K = 60;
+        const scoreMap = new Map();
+        for (let i = 0; i < keywordResults.length; i++) {
+            const r = keywordResults[i];
+            scoreMap.set(r.relativePath, {
+                score: 1 / (RRF_K + i + 1),
+                result: r,
+                sources: new Set(["keyword"]),
+            });
+        }
+        for (let i = 0; i < semanticResults.length; i++) {
+            const r = semanticResults[i];
+            const rrfScore = 1 / (RRF_K + i + 1);
+            const existing = scoreMap.get(r.relativePath);
+            if (existing) {
+                existing.score += rrfScore;
+                existing.sources.add("semantic");
+            }
+            else {
+                scoreMap.set(r.relativePath, {
+                    score: rrfScore,
+                    result: r,
+                    sources: new Set(["semantic"]),
+                });
+            }
+        }
+        return Array.from(scoreMap.values())
+            .sort((a, b) => b.score - a.score)
+            .slice(0, limit)
+            .map((entry) => ({
+            ...entry.result,
+            score: entry.score,
+            sources: Array.from(entry.sources),
+        }));
+    }
+    /**
+     * Load full content for search results (used by Ask engine).
+     * In DB mode, we read directly from the memories table.
+     */
+    loadContent(results) {
+        return results.map((r) => {
+            if (r.memoryId) {
+                const mem = this.db.getMemory(r.memoryId);
+                if (mem) {
+                    return { ...r, fullContent: mem.content, memoryId: mem.id };
+                }
+            }
+            return r;
+        });
+    }
+    /**
+     * Get a memory by ID (replaces resolver.readMemory for db mode)
+     */
+    getMemory(id) {
+        return this.db.getMemory(id);
+    }
+    /**
+     * Check if embeddings exist in the db
+     */
+    hasEmbeddings() {
+        return this.db.getEmbeddingCount() > 0;
+    }
+    /**
+     * Get embedding count
+     */
+    embeddingCount() {
+        return this.db.getEmbeddingCount();
+    }
+}
+//# sourceMappingURL=dbSearch.js.map

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package/dist/lib/dbWrite.d.ts

@@ -0,0 +1,56 @@
+/**
+ * Gnosys DB Write — Dual-write layer for v2.0 migration.
+ *
+ * When gnosys.db is available, all write operations go to BOTH:
+ *   1. .md files (via GnosysStore) — safety net + Obsidian compatibility
+ *   2. gnosys.db (via GnosysDB) — primary store for agent reads
+ *
+ * This module provides helper functions that MCP tools and maintenance
+ * call after writing to the .md store. It also handles syncing writes
+ * that bypass the .md layer (e.g., maintenance operations on archived
+ * memories).
+ *
+ * Once the Obsidian Export Bridge (Phase 7e) is complete, .md writes
+ * become optional — controlled by config.
+ */
+import { GnosysDB } from "./db.js";
+import { MemoryFrontmatter } from "./store.js";
+/**
+ * Sync a memory write to gnosys.db after it's been written to .md.
+ * Call this after GnosysStore.writeMemory() or updateMemory().
+ *
+ * v3.0: Accepts optional projectId and scope for centralized brain.
+ */
+export declare function syncMemoryToDb(db: GnosysDB, frontmatter: MemoryFrontmatter, content: string, sourcePath?: string, projectId?: string | null, scope?: string): void;
+/**
+ * Sync a memory update to gnosys.db after it's been updated in .md.
+ */
+export declare function syncUpdateToDb(db: GnosysDB, id: string, updates: Partial<MemoryFrontmatter>, newContent?: string): void;
+/**
+ * Sync an archive operation to gnosys.db.
+ * Sets tier='archive' on the memory.
+ */
+export declare function syncArchiveToDb(db: GnosysDB, memoryId: string): void;
+/**
+ * Sync a dearchive operation to gnosys.db.
+ * Sets tier='active' on the memory.
+ */
+export declare function syncDearchiveToDb(db: GnosysDB, memoryId: string): void;
+/**
+ * Sync a delete operation to gnosys.db.
+ */
+export declare function syncDeleteToDb(db: GnosysDB, memoryId: string): void;
+/**
+ * Sync a reinforcement to gnosys.db.
+ */
+export declare function syncReinforcementToDb(db: GnosysDB, memoryId: string, newCount: number): void;
+/**
+ * Sync a confidence update to gnosys.db (e.g., from decay).
+ */
+export declare function syncConfidenceToDb(db: GnosysDB, memoryId: string, newConfidence: number): void;
+/**
+ * Log an audit entry to gnosys.db's audit_log table.
+ * This supplements (and eventually replaces) the JSONL audit log.
+ */
+export declare function auditToDb(db: GnosysDB, operation: string, memoryId?: string, details?: Record<string, unknown>, durationMs?: number, traceId?: string): void;
+//# sourceMappingURL=dbWrite.d.ts.map

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

@@ -0,0 +1 @@
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package/dist/lib/dbWrite.js

@@ -0,0 +1,171 @@
+/**
+ * Gnosys DB Write — Dual-write layer for v2.0 migration.
+ *
+ * When gnosys.db is available, all write operations go to BOTH:
+ *   1. .md files (via GnosysStore) — safety net + Obsidian compatibility
+ *   2. gnosys.db (via GnosysDB) — primary store for agent reads
+ *
+ * This module provides helper functions that MCP tools and maintenance
+ * call after writing to the .md store. It also handles syncing writes
+ * that bypass the .md layer (e.g., maintenance operations on archived
+ * memories).
+ *
+ * Once the Obsidian Export Bridge (Phase 7e) is complete, .md writes
+ * become optional — controlled by config.
+ */
+import { fnv1a } from "./db.js";
+/**
+ * Sync a memory write to gnosys.db after it's been written to .md.
+ * Call this after GnosysStore.writeMemory() or updateMemory().
+ *
+ * v3.0: Accepts optional projectId and scope for centralized brain.
+ */
+export function syncMemoryToDb(db, frontmatter, content, sourcePath, projectId, scope) {
+    if (!db.isAvailable())
+        return;
+    const tags = Array.isArray(frontmatter.tags)
+        ? JSON.stringify(frontmatter.tags)
+        : JSON.stringify(Object.values(frontmatter.tags).flat());
+    db.insertMemory({
+        id: frontmatter.id,
+        title: frontmatter.title,
+        category: frontmatter.category,
+        content,
+        summary: null,
+        tags,
+        relevance: frontmatter.relevance || "",
+        author: frontmatter.author || "ai",
+        authority: frontmatter.authority || "imported",
+        confidence: frontmatter.confidence ?? 0.8,
+        reinforcement_count: frontmatter.reinforcement_count ?? 0,
+        content_hash: fnv1a(content),
+        status: frontmatter.status || "active",
+        tier: frontmatter.status === "archived" ? "archive" : "active",
+        supersedes: frontmatter.supersedes || null,
+        superseded_by: frontmatter.superseded_by || null,
+        last_reinforced: frontmatter.last_reinforced || null,
+        created: frontmatter.created || new Date().toISOString().split("T")[0],
+        modified: frontmatter.modified || new Date().toISOString().split("T")[0],
+        source_path: sourcePath || null,
+        project_id: projectId || null,
+        scope: scope || "project",
+    });
+}
+/**
+ * Sync a memory update to gnosys.db after it's been updated in .md.
+ */
+export function syncUpdateToDb(db, id, updates, newContent) {
+    if (!db.isAvailable())
+        return;
+    const dbUpdates = {};
+    if (updates.title !== undefined)
+        dbUpdates.title = updates.title;
+    if (updates.category !== undefined)
+        dbUpdates.category = updates.category;
+    if (updates.status !== undefined) {
+        dbUpdates.status = updates.status;
+        if (updates.status === "archived")
+            dbUpdates.tier = "archive";
+    }
+    if (updates.confidence !== undefined)
+        dbUpdates.confidence = updates.confidence;
+    if (updates.relevance !== undefined)
+        dbUpdates.relevance = updates.relevance;
+    if (updates.supersedes !== undefined)
+        dbUpdates.supersedes = updates.supersedes || null;
+    if (updates.superseded_by !== undefined)
+        dbUpdates.superseded_by = updates.superseded_by || null;
+    if (updates.reinforcement_count !== undefined)
+        dbUpdates.reinforcement_count = updates.reinforcement_count;
+    if (updates.last_reinforced !== undefined)
+        dbUpdates.last_reinforced = updates.last_reinforced || null;
+    if (updates.tags !== undefined) {
+        dbUpdates.tags = Array.isArray(updates.tags)
+            ? JSON.stringify(updates.tags)
+            : JSON.stringify(Object.values(updates.tags).flat());
+    }
+    if (updates.author !== undefined)
+        dbUpdates.author = updates.author;
+    if (updates.authority !== undefined)
+        dbUpdates.authority = updates.authority;
+    if (newContent !== undefined) {
+        dbUpdates.content = newContent;
+        dbUpdates.content_hash = fnv1a(newContent);
+    }
+    dbUpdates.modified = new Date().toISOString().split("T")[0];
+    db.updateMemory(id, dbUpdates);
+}
+/**
+ * Sync an archive operation to gnosys.db.
+ * Sets tier='archive' on the memory.
+ */
+export function syncArchiveToDb(db, memoryId) {
+    if (!db.isAvailable())
+        return;
+    db.updateMemory(memoryId, {
+        tier: "archive",
+        status: "archived",
+        modified: new Date().toISOString().split("T")[0],
+    });
+}
+/**
+ * Sync a dearchive operation to gnosys.db.
+ * Sets tier='active' on the memory.
+ */
+export function syncDearchiveToDb(db, memoryId) {
+    if (!db.isAvailable())
+        return;
+    db.updateMemory(memoryId, {
+        tier: "active",
+        status: "active",
+        modified: new Date().toISOString().split("T")[0],
+    });
+}
+/**
+ * Sync a delete operation to gnosys.db.
+ */
+export function syncDeleteToDb(db, memoryId) {
+    if (!db.isAvailable())
+        return;
+    db.deleteMemory(memoryId);
+}
+/**
+ * Sync a reinforcement to gnosys.db.
+ */
+export function syncReinforcementToDb(db, memoryId, newCount) {
+    if (!db.isAvailable())
+        return;
+    db.updateMemory(memoryId, {
+        reinforcement_count: newCount,
+        last_reinforced: new Date().toISOString().split("T")[0],
+        modified: new Date().toISOString().split("T")[0],
+    });
+}
+/**
+ * Sync a confidence update to gnosys.db (e.g., from decay).
+ */
+export function syncConfidenceToDb(db, memoryId, newConfidence) {
+    if (!db.isAvailable())
+        return;
+    db.updateMemory(memoryId, {
+        confidence: newConfidence,
+        modified: new Date().toISOString().split("T")[0],
+    });
+}
+/**
+ * Log an audit entry to gnosys.db's audit_log table.
+ * This supplements (and eventually replaces) the JSONL audit log.
+ */
+export function auditToDb(db, operation, memoryId, details, durationMs, traceId) {
+    if (!db.isAvailable())
+        return;
+    db.logAudit({
+        timestamp: new Date().toISOString(),
+        operation,
+        memory_id: memoryId || null,
+        details: details ? JSON.stringify(details) : null,
+        duration_ms: durationMs ? Math.round(durationMs) : null,
+        trace_id: traceId || null,
+    });
+}
+//# sourceMappingURL=dbWrite.js.map

package/dist/lib/dbWrite.js.map

@@ -0,0 +1 @@
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