cognitive-core 0.2.1 → 0.2.2

package/references/minimem/README.md

@@ -1,556 +0,0 @@
-# minimem
-
-A lightweight, file-based memory system with vector search for AI agents.
-
-Turn your filesystem into a searchable knowledge base. Write memories in Markdown, search them semantically.
-
-## Features
-
-- **File-based storage** - Memories are plain Markdown files you can edit, version with git, and sync anywhere
-- **Semantic search** - Find relevant memories using natural language queries powered by embeddings
-- **Hybrid search** - Combines vector similarity with full-text search (BM25) for better results
-- **Multiple embedding providers** - OpenAI, Google Gemini, or local models via llama.cpp
-- **MCP server** - Integrate with Claude Desktop, Cursor, and other MCP-compatible tools
-- **CLI tool** - Initialize, search, sync, and manage memories from the command line
-- **Multi-directory search** - Search across multiple memory banks in a single query
-
-## Installation
-
-```bash
-npm install minimem
-```
-
-Or install globally for CLI usage:
-
-```bash
-npm install -g minimem
-```
-
-Requires Node.js 22+ (uses experimental `node:sqlite`).
-
-## Quick Start
-
-### CLI Usage
-
-```bash
-# Initialize a memory directory
-minimem init ~/memories
-
-# Set your embedding API key
-export OPENAI_API_KEY=your-key
-# or: export GOOGLE_API_KEY=your-key
-
-# Add some memories
-minimem append "Decided to use PostgreSQL for the main database" --dir ~/memories
-
-# Search your memories
-minimem search "database decisions" --dir ~/memories
-
-# Create or update a memory file
-minimem upsert "memory/architecture.md" "# Architecture Notes..." --dir ~/memories
-```
-
-### Library Usage
-
-```typescript
-import { Minimem } from 'minimem';
-
-// Create a Minimem instance
-const mem = await Minimem.create({
-  memoryDir: './memories',
-  embedding: {
-    provider: 'openai',
-    openai: { apiKey: process.env.OPENAI_API_KEY }
-  }
-});
-
-// Search memories
-const results = await mem.search('database architecture');
-for (const result of results) {
-  console.log(`[${result.score}] ${result.path}:${result.startLine}`);
-  console.log(result.snippet);
-}
-
-// Append to today's log
-await mem.appendToday('Reviewed the API design document');
-
-// Clean up
-mem.close();
-```
-
-## CLI Commands
-
-| Command | Description |
-|---------|-------------|
-| `minimem init [dir]` | Initialize a memory directory |
-| `minimem search <query>` | Semantic search through memories |
-| `minimem sync` | Force re-index memory files |
-| `minimem status` | Show index stats and provider info |
-| `minimem append <text>` | Append to today's daily log |
-| `minimem upsert <file> [content]` | Create or update a memory file |
-| `minimem mcp` | Run as MCP server (stdio) |
-
-### Common Options
-
-- `-d, --dir <path>` - Memory directory (default: current directory)
-- `-g, --global` - Use `~/.minimem` as the memory directory
-- `-p, --provider <name>` - Embedding provider: `openai`, `gemini`, `local`, or `auto`
-
-### Search Options
-
-```bash
-# Search with options
-minimem search "project decisions" \
-  --dir ~/memories \
-  --max 5 \
-  --min-score 0.5 \
-  --json
-
-# Search multiple directories
-minimem search "api design" \
-  --dir ~/work-memories \
-  --dir ~/personal-notes \
-  --global
-```
-
-### Upsert Examples
-
-```bash
-# Create/update with inline content
-minimem upsert "notes.md" "# My Notes" --dir ~/memories
-
-# Pipe content from stdin
-cat document.md | minimem upsert "imported.md" --stdin --dir ~/memories
-
-# Use heredoc for multi-line content
-minimem upsert "memory/decisions.md" --stdin --dir ~/memories << 'EOF'
-# Architecture Decisions
-
-## Database
-We chose PostgreSQL for its reliability and JSON support.
-
-## API
-REST with OpenAPI documentation.
-EOF
-```
-
-## Memory Directory Structure
-
-```
-my-memories/
-├── MEMORY.md           # Main memory file (indexed)
-├── memory/             # Additional memory files
-│   ├── 2024-01-15.md   # Daily logs
-│   ├── 2024-01-16.md
-│   └── projects.md     # Topic-specific notes
-└── .minimem/           # Internal data (gitignored)
-    ├── config.json     # Configuration
-    └── index.db        # SQLite database with vectors
-```
-
-## Configuration
-
-Configuration is stored in `.minimem/config.json`:
-
-```json
-{
-  "embedding": {
-    "provider": "auto",
-    "model": "text-embedding-3-small"
-  },
-  "hybrid": {
-    "enabled": true,
-    "vectorWeight": 0.7,
-    "textWeight": 0.3
-  },
-  "query": {
-    "maxResults": 10,
-    "minScore": 0.3
-  }
-}
-```
-
-### Environment Variables
-
-| Variable | Description |
-|----------|-------------|
-| `OPENAI_API_KEY` | OpenAI API key for embeddings |
-| `GOOGLE_API_KEY` | Google/Gemini API key for embeddings |
-| `GEMINI_API_KEY` | Alternative Gemini API key |
-| `MEMORY_DIR` | Default memory directory |
-
-### Embedding Providers
-
-**OpenAI** (recommended for quality):
-```bash
-export OPENAI_API_KEY=sk-...
-minimem search "query" --provider openai
-```
-
-**Gemini** (good free tier):
-```bash
-export GOOGLE_API_KEY=...
-minimem search "query" --provider gemini
-```
-
-**Local** (no API needed, requires setup):
-```bash
-minimem search "query" --provider local
-```
-
-**Auto** (default): Tries OpenAI → Gemini → Local based on available API keys.
-
-## MCP Server Integration
-
-minimem can run as an [MCP server](https://modelcontextprotocol.io/) for integration with Claude Desktop, Cursor, and other tools.
-
-### Claude Desktop
-
-Add to your Claude Desktop config (`~/Library/Application Support/Claude/claude_desktop_config.json`):
-
-```json
-{
-  "mcpServers": {
-    "minimem": {
-      "command": "minimem",
-      "args": ["mcp", "--global"],
-      "env": {
-        "OPENAI_API_KEY": "your-key"
-      }
-    }
-  }
-}
-```
-
-### Multiple Memory Directories
-
-The MCP server supports searching across multiple memory directories:
-
-```json
-{
-  "mcpServers": {
-    "minimem": {
-      "command": "minimem",
-      "args": ["mcp", "--dir", "/path/to/work", "--dir", "/path/to/personal", "--global"],
-      "env": {
-        "OPENAI_API_KEY": "your-key"
-      }
-    }
-  }
-}
-```
-
-When multiple directories are configured:
-- The `memory_search` tool searches all directories by default
-- Results are merged and ranked by score
-- Each result shows which directory it came from
-- Use the optional `directories` parameter to filter to specific directories
-
-### Cursor
-
-Add to Cursor's MCP settings:
-
-```json
-{
-  "mcpServers": {
-    "minimem": {
-      "command": "minimem",
-      "args": ["mcp", "--dir", "/path/to/memories"],
-      "env": {
-        "OPENAI_API_KEY": "your-key"
-      }
-    }
-  }
-}
-```
-
-### Available MCP Tool
-
-The MCP server exposes a `memory_search` tool:
-
-```typescript
-{
-  name: "memory_search",
-  description: "Search through memory files using semantic search",
-  inputSchema: {
-    type: "object",
-    properties: {
-      query: { type: "string", description: "Search query" },
-      maxResults: { type: "number", description: "Max results (default: 10)" },
-      minScore: { type: "number", description: "Min score 0-1 (default: 0.3)" },
-      directories: {
-        type: "array",
-        items: { type: "string" },
-        description: "Filter to specific directories (searches all if omitted)"
-      }
-    },
-    required: ["query"]
-  }
-}
-```
-
-## Library API
-
-### Creating an Instance
-
-```typescript
-import { Minimem, type MinimemConfig } from 'minimem';
-
-const config: MinimemConfig = {
-  memoryDir: './memories',
-  embedding: {
-    provider: 'openai',
-    openai: {
-      apiKey: process.env.OPENAI_API_KEY,
-      model: 'text-embedding-3-small'  // or text-embedding-3-large
-    }
-  },
-  hybrid: {
-    enabled: true,
-    vectorWeight: 0.7,
-    textWeight: 0.3
-  },
-  watch: true,  // Auto-sync on file changes
-  debug: console.log  // Optional debug logging
-};
-
-const mem = await Minimem.create(config);
-```
-
-### Search
-
-```typescript
-const results = await mem.search('database architecture', {
-  maxResults: 10,
-  minScore: 0.3
-});
-
-// Results include:
-// - path: relative file path
-// - snippet: matching text chunk
-// - score: relevance score (0-1)
-// - startLine, endLine: line numbers
-// - heading: section heading if available
-```
-
-### File Operations
-
-```typescript
-// Append to today's daily log (memory/YYYY-MM-DD.md)
-await mem.appendToday('Meeting notes: discussed API design');
-
-// Append to specific file
-await mem.appendFile('memory/project.md', 'New decision made');
-
-// List all memory files
-const files = await mem.listFiles();
-
-// Get status
-const status = await mem.status();
-console.log(`Files: ${status.fileCount}, Chunks: ${status.chunkCount}`);
-```
-
-### Sync Control
-
-```typescript
-// Manual sync (usually automatic)
-await mem.sync();
-
-// Force full re-index
-await mem.sync({ force: true });
-```
-
-### Custom Embedding Providers
-
-```typescript
-import { createEmbeddingProvider } from 'minimem';
-
-// Create provider with custom settings
-const provider = createEmbeddingProvider({
-  provider: 'openai',
-  openai: {
-    apiKey: process.env.OPENAI_API_KEY,
-    model: 'text-embedding-3-large',
-    dimensions: 1536
-  }
-});
-
-// Or use Gemini
-const geminiProvider = createEmbeddingProvider({
-  provider: 'gemini',
-  gemini: {
-    apiKey: process.env.GOOGLE_API_KEY,
-    model: 'text-embedding-004'
-  }
-});
-```
-
-## How It Works
-
-### Architecture Overview
-
-```
-┌─────────────────────────────────────────────────────────────┐
-│                         minimem                              │
-├─────────────────────────────────────────────────────────────┤
-│  Memory Files (.md)                                          │
-│  ┌─────────┐ ┌─────────┐ ┌─────────┐                        │
-│  │MEMORY.md│ │daily.md │ │notes.md │  ← Plain Markdown      │
-│  └────┬────┘ └────┬────┘ └────┬────┘                        │
-│       │           │           │                              │
-│       └───────────┴───────────┘                              │
-│                   │                                          │
-│                   ▼                                          │
-│  ┌─────────────────────────────────────┐                    │
-│  │           Chunking                   │                    │
-│  │  Split by headings/paragraphs        │                    │
-│  │  ~500 chars per chunk                │                    │
-│  └──────────────────┬──────────────────┘                    │
-│                     │                                        │
-│                     ▼                                        │
-│  ┌─────────────────────────────────────┐                    │
-│  │      Embedding Provider              │                    │
-│  │  OpenAI / Gemini / Local             │                    │
-│  │  text → [0.1, -0.3, 0.8, ...]       │                    │
-│  └──────────────────┬──────────────────┘                    │
-│                     │                                        │
-│                     ▼                                        │
-│  ┌─────────────────────────────────────┐                    │
-│  │         SQLite Database              │                    │
-│  │  ┌─────────┐  ┌─────────────────┐   │                    │
-│  │  │  FTS5   │  │  sqlite-vec     │   │                    │
-│  │  │ (text)  │  │  (vectors)      │   │                    │
-│  │  └─────────┘  └─────────────────┘   │                    │
-│  └──────────────────┬──────────────────┘                    │
-│                     │                                        │
-│                     ▼                                        │
-│  ┌─────────────────────────────────────┐                    │
-│  │         Hybrid Search                │                    │
-│  │  Vector similarity + BM25 ranking    │                    │
-│  │  Weighted merge of results           │                    │
-│  └─────────────────────────────────────┘                    │
-└─────────────────────────────────────────────────────────────┘
-```
-
-### Indexing Process
-
-1. **File Discovery**: Scans for `MEMORY.md` and `memory/*.md` files
-2. **Chunking**: Splits content by Markdown headings and paragraphs (~500 chars each)
-3. **Hashing**: Each chunk gets a content hash to detect changes
-4. **Embedding**: New/changed chunks are sent to the embedding provider
-5. **Storage**: Chunks and vectors stored in SQLite with sqlite-vec extension
-6. **Caching**: Embeddings cached by content hash to avoid re-computation
-
-### Search Process
-
-1. **Query Embedding**: Convert search query to vector using same embedding model
-2. **Vector Search**: Find similar chunks using cosine similarity (sqlite-vec)
-3. **Text Search**: Find matching chunks using FTS5 full-text search (BM25)
-4. **Hybrid Merge**: Combine results with configurable weights (default 70% vector, 30% text)
-5. **Ranking**: Sort by combined score, apply min-score filter
-
-### Why Hybrid Search?
-
-Pure vector search excels at semantic similarity but can miss exact matches. Pure text search finds exact terms but misses synonyms. Hybrid search combines both:
-
-- **Vector (70%)**: Finds conceptually related content ("database" matches "PostgreSQL")
-- **Text (30%)**: Boosts exact keyword matches ("PostgreSQL" query ranks PostgreSQL mentions higher)
-
-### Storage Format
-
-SQLite database with three main tables:
-
-```sql
--- File metadata and modification tracking
-CREATE TABLE memory_files (
-  path TEXT PRIMARY KEY,
-  mtime INTEGER,
-  hash TEXT
-);
-
--- Content chunks with embeddings
-CREATE TABLE memory_chunks (
-  id INTEGER PRIMARY KEY,
-  path TEXT,
-  content TEXT,
-  hash TEXT,
-  start_line INTEGER,
-  end_line INTEGER,
-  heading TEXT,
-  embedding BLOB  -- F32 vector
-);
-
--- Full-text search index
-CREATE VIRTUAL TABLE memory_fts USING fts5(content, path);
-
--- Vector similarity index (when sqlite-vec available)
-CREATE VIRTUAL TABLE memory_vec USING vec0(embedding float[128]);
-```
-
-### Embedding Cache
-
-Embeddings are cached by content hash in a separate table:
-
-```sql
-CREATE TABLE embedding_cache (
-  hash TEXT PRIMARY KEY,
-  embedding BLOB,
-  model TEXT,
-  created_at INTEGER
-);
-```
-
-This means:
-- Identical text always produces the same embedding (deterministic)
-- Moving/copying chunks doesn't require re-embedding
-- Switching files with same content is instant
-
-## Claude Code Plugin
-
-A ready-to-use Claude Code plugin is included in the `claude-plugin/` directory.
-
-### Quick Install
-
-```bash
-# Install minimem globally
-npm install -g minimem
-
-# Initialize global memory
-minimem init --global
-
-# Test the plugin
-claude --plugin-dir /path/to/minimem/claude-plugin
-```
-
-### Plugin Features
-
-- **MCP Server**: `memory_search` tool for semantic search
-- **Memory Skill**: Auto-invoked for storing/recalling context
-- **Commands**:
-  - `/minimem:remember <text>` - Store information
-  - `/minimem:recall <query>` - Search memories
-
-See `claude-plugin/README.md` for detailed documentation.
-
-## Development
-
-```bash
-# Install dependencies
-npm install
-
-# Build
-npm run build
-
-# Run tests
-npm run test:all      # All tests
-npm run test:unit     # Unit tests (vitest)
-npm run test:cli      # CLI command tests
-npm run test:integration  # E2E integration tests
-
-# Development mode
-npm run dev
-```
-
-## License
-
-MIT

package/references/minimem/claude-plugin/.claude-plugin/plugin.json

@@ -1,10 +0,0 @@
-{
-  "name": "minimem",
-  "description": "Lightweight file-based memory system with semantic search for AI agents. Store and recall context across sessions.",
-  "version": "0.0.3",
-  "author": {
-    "name": "Alex Ngai"
-  },
-  "repository": "https://github.com/alexngai/minimem",
-  "keywords": ["memory", "agent", "filesystem", "search", "context", "rag", "embeddings"]
-}

package/references/minimem/claude-plugin/.mcp.json

@@ -1,7 +0,0 @@
-{
-  "minimem": {
-    "command": "npx",
-    "args": ["minimem", "mcp", "--dir", ".", "--global"],
-    "env": {}
-  }
-}