Add context injection system (Milestone 3)

- Add src/core/context.ts with context gathering, ranking, and formatting
- Add src/core/config.ts for persistent configuration storage
- Add CLI commands: cortex context, cortex context-hook, cortex config
- Add memory_context MCP tool for Claude Code integration
- Add GET /api/context endpoint
- Include summary.ts from main branch for heartbeat dependency

src/cli/commands/capture.ts

@@ -1,176 +0,0 @@
-import { Command } from 'commander';
-import chalk from 'chalk';
-import { captureConversation, captureText, getCaptureConfig, setCaptureConfig, CaptureMode } from '../../core/capture';
-
-const VALID_MODES: CaptureMode[] = ['always', 'manual', 'decisions', 'off'];
-
-export const captureCommand = new Command('capture')
-  .description('Capture text or conversation as a memory node')
-  .argument('[text]', 'Text to capture (or pipe via stdin)')
-  .option('--tags <tags>', 'Comma-separated tags')
-  .option('--source <source>', 'Source identifier', 'manual')
-  .action(async (text: string | undefined, opts) => {
-    let content = text;
-
-    // Read from stdin if no text provided
-    if (!content) {
-      content = await readStdin();
-    }
-
-    if (!content || content.trim().length === 0) {
-      console.error(chalk.red('No text provided. Pass text as argument or pipe via stdin.'));
-      process.exit(1);
-    }
-
-    const tags = opts.tags ? opts.tags.split(',').map((t: string) => t.trim()) : [];
-
-    const result = await captureText(content, { tags, source: opts.source });
-
-    if (!result.captured) {
-      console.log(chalk.yellow(`⚠ Not captured: ${result.reason}`));
-      return;
-    }
-
-    console.log(chalk.green(`✓ Memory ${result.action}`));
-    if (result.node) {
-      console.log(`  ID:    ${chalk.cyan(result.node.id)}`);
-      console.log(`  Title: ${result.node.title}`);
-      if (result.node.tags.length) console.log(`  Tags:  ${result.node.tags.join(', ')}`);
-    }
-    if (result.reason) {
-      console.log(`  ${chalk.dim(result.reason)}`);
-    }
-  });
-
-export const captureHookCommand = new Command('capture-hook')
-  .description('Hook handler for Claude Code auto-capture (receives JSON on stdin)')
-  .option('--session <id>', 'Session ID')
-  .action(async (opts) => {
-    const input = await readStdin();
-
-    if (!input) {
-      // Silent exit - hook may be called with empty input
-      process.exit(0);
-    }
-
-    let data: { conversation?: string; files_changed?: string[]; session_id?: string };
-    try {
-      data = JSON.parse(input);
-    } catch {
-      // Not JSON, treat as plain conversation text
-      data = { conversation: input };
-    }
-
-    const conversation = data.conversation;
-    if (!conversation) {
-      process.exit(0);
-    }
-
-    const result = await captureConversation({
-      conversation,
-      sessionId: data.session_id || opts.session,
-      filesChanged: data.files_changed,
-      source: 'claude-code',
-    });
-
-    // Output result as JSON for hook system
-    console.log(JSON.stringify({
-      captured: result.captured,
-      action: result.action,
-      nodeId: result.node?.id,
-      reason: result.reason,
-    }));
-  });
-
-export const configCommand = new Command('config')
-  .description('Manage capture configuration')
-  .argument('<action>', 'Action: get, set, or list')
-  .argument('[key]', 'Config key (for get/set)')
-  .argument('[value]', 'Config value (for set)')
-  .action(async (action: string, key?: string, value?: string) => {
-    const config = getCaptureConfig();
-
-    if (action === 'list') {
-      console.log(chalk.bold('Capture Configuration:'));
-      console.log(`  mode:              ${chalk.cyan(config.mode)}`);
-      console.log(`  minLength:         ${config.minLength}`);
-      console.log(`  excludePatterns:   ${config.excludePatterns.length ? config.excludePatterns.join(', ') : chalk.dim('(none)')}`);
-      console.log(`  autoTag:           ${config.autoTag}`);
-      console.log(`  linkRelated:       ${config.linkRelated}`);
-      console.log(`  similarityThreshold: ${config.similarityThreshold}`);
-      console.log(`  mergeThreshold:    ${config.mergeThreshold}`);
-      return;
-    }
-
-    if (action === 'get') {
-      if (!key) {
-        console.error(chalk.red('Key required for get'));
-        process.exit(1);
-      }
-      if (!(key in config)) {
-        console.error(chalk.red(`Unknown config key: ${key}`));
-        process.exit(1);
-      }
-      const val = config[key as keyof typeof config];
-      console.log(Array.isArray(val) ? val.join(', ') : String(val));
-      return;
-    }
-
-    if (action === 'set') {
-      if (!key || value === undefined) {
-        console.error(chalk.red('Key and value required for set'));
-        process.exit(1);
-      }
-
-      let parsedValue: any = value;
-
-      // Parse value based on key type
-      if (key === 'mode') {
-        if (!VALID_MODES.includes(value as CaptureMode)) {
-          console.error(chalk.red(`Invalid mode. Must be one of: ${VALID_MODES.join(', ')}`));
-          process.exit(1);
-        }
-        parsedValue = value;
-      } else if (key === 'minLength' || key === 'similarityThreshold' || key === 'mergeThreshold') {
-        parsedValue = parseFloat(value);
-        if (isNaN(parsedValue)) {
-          console.error(chalk.red('Value must be a number'));
-          process.exit(1);
-        }
-      } else if (key === 'autoTag' || key === 'linkRelated') {
-        parsedValue = value === 'true' || value === '1';
-      } else if (key === 'excludePatterns') {
-        parsedValue = value.split(',').map(s => s.trim()).filter(Boolean);
-      } else {
-        console.error(chalk.red(`Unknown config key: ${key}`));
-        process.exit(1);
-      }
-
-      setCaptureConfig({ [key]: parsedValue });
-      console.log(chalk.green(`✓ Set ${key} = ${JSON.stringify(parsedValue)}`));
-      return;
-    }
-
-    console.error(chalk.red('Invalid action. Use: get, set, or list'));
-    process.exit(1);
-  });
-
-async function readStdin(): Promise<string> {
-  return new Promise((resolve) => {
-    // Check if stdin has data (non-TTY mode)
-    if (process.stdin.isTTY) {
-      resolve('');
-      return;
-    }
-
-    let data = '';
-    process.stdin.setEncoding('utf8');
-    process.stdin.on('data', (chunk) => { data += chunk; });
-    process.stdin.on('end', () => { resolve(data.trim()); });
-
-    // Timeout after 100ms if no data
-    setTimeout(() => {
-      if (!data) resolve('');
-    }, 100);
-  });
-}

src/cli/commands/config.ts

@@ -0,0 +1,81 @@
+import { Command } from 'commander';
+import chalk from 'chalk';
+import { getConfig, setConfig, listConfig, resetConfig, CortexConfig } from '../../core/config';
+
+export const configCommand = new Command('config')
+  .description('Manage Cortex configuration');
+
+configCommand
+  .command('get <key>')
+  .description('Get a config value')
+  .action((key: string) => {
+    try {
+      const value = getConfig(key as keyof CortexConfig);
+      console.log(value);
+    } catch (err) {
+      console.error(chalk.red(`Unknown config key: ${key}`));
+      process.exit(1);
+    }
+  });
+
+configCommand
+  .command('set <key> <value>')
+  .description('Set a config value')
+  .action((key: string, value: string) => {
+    // Validate key exists
+    const validKeys = [
+      'context.maxTokens',
+      'context.maxNodes',
+      'context.includeRecent',
+      'context.includeProject',
+      'context.includeTasks',
+      'context.includeDecisions',
+    ];
+
+    if (!validKeys.includes(key)) {
+      console.error(chalk.red(`Unknown config key: ${key}`));
+      console.error(chalk.dim(`Valid keys: ${validKeys.join(', ')}`));
+      process.exit(1);
+    }
+
+    // Parse value based on key type
+    let parsed: string | number | boolean = value;
+    if (key.startsWith('context.max')) {
+      parsed = parseInt(value, 10);
+      if (isNaN(parsed)) {
+        console.error(chalk.red(`Invalid number: ${value}`));
+        process.exit(1);
+      }
+    } else if (key.startsWith('context.include')) {
+      if (value !== 'true' && value !== 'false') {
+        console.error(chalk.red(`Invalid boolean: ${value} (use true or false)`));
+        process.exit(1);
+      }
+      parsed = value === 'true';
+    }
+
+    setConfig(key as keyof CortexConfig, parsed as any);
+    console.log(chalk.green(`Set ${key} = ${parsed}`));
+  });
+
+configCommand
+  .command('list')
+  .description('List all config values')
+  .action(() => {
+    const configs = listConfig();
+    console.log(chalk.bold('Configuration:'));
+    console.log();
+
+    for (const { key, value, isDefault } of configs) {
+      const displayValue = isDefault ? chalk.dim(`${value} (default)`) : chalk.cyan(value);
+      console.log(`  ${chalk.yellow(key)}: ${displayValue}`);
+    }
+  });
+
+configCommand
+  .command('reset <key>')
+  .description('Reset a config key to default')
+  .action((key: string) => {
+    resetConfig(key as keyof CortexConfig);
+    console.log(chalk.green(`Reset ${key} to default`));
+  });

src/cli/commands/context.ts

@@ -0,0 +1,85 @@
+import { Command } from 'commander';
+import chalk from 'chalk';
+import * as path from 'path';
+import { gatherContext, DEFAULT_CONTEXT_CONFIG } from '../../core/context';
+
+export const contextCommand = new Command('context')
+  .description('Preview or inject context for a Claude session')
+  .option('-p, --project <name>', 'Project name (defaults to current directory name)')
+  .option('-q, --query <text>', 'Additional semantic search query')
+  .option('--max-tokens <n>', 'Maximum tokens', String(DEFAULT_CONTEXT_CONFIG.maxTokens))
+  .option('--max-nodes <n>', 'Maximum nodes', String(DEFAULT_CONTEXT_CONFIG.maxNodes))
+  .option('--format <fmt>', 'Output format: markdown or json', 'markdown')
+  .option('--no-recent', 'Exclude recent activity')
+  .option('--no-tasks', 'Exclude open tasks')
+  .option('--no-decisions', 'Exclude decisions')
+  .action(async (opts) => {
+    const project = opts.project ?? path.basename(process.cwd());
+
+    const result = await gatherContext({
+      project,
+      semanticQuery: opts.query,
+      config: {
+        maxTokens: parseInt(opts.maxTokens),
+        maxNodes: parseInt(opts.maxNodes),
+        includeRecent: opts.recent !== false,
+        includeTasks: opts.tasks !== false,
+        includeDecisions: opts.decisions !== false,
+      },
+    });
+
+    if (opts.format === 'json') {
+      console.log(JSON.stringify({
+        project,
+        nodeCount: result.nodes.length,
+        nodes: result.nodes.map(r => ({
+          id: r.node.id,
+          kind: r.node.kind,
+          title: r.node.title,
+          score: r.score,
+          reason: r.reason,
+        })),
+      }, null, 2));
+      return;
+    }
+
+    // Markdown output
+    if (result.nodes.length === 0) {
+      console.log(chalk.yellow('No relevant context found.'));
+      return;
+    }
+
+    console.log(chalk.cyan(`# Context for ${project}`));
+    console.log(chalk.dim(`(${result.nodes.length} nodes)`));
+    console.log();
+    console.log(result.formatted);
+  });
+
+/**
+ * Hook command for Claude Code integration
+ * Outputs context to stdout for injection
+ */
+export const contextHookCommand = new Command('context-hook')
+  .description('Hook handler for Claude Code session start (outputs context to stdout)')
+  .option('-p, --project <name>', 'Project name (defaults to current directory name)')
+  .option('--max-tokens <n>', 'Maximum tokens', String(DEFAULT_CONTEXT_CONFIG.maxTokens))
+  .action(async (opts) => {
+    const project = opts.project ?? path.basename(process.cwd());
+
+    const result = await gatherContext({
+      project,
+      config: {
+        maxTokens: parseInt(opts.maxTokens),
+      },
+    });
+
+    if (result.nodes.length === 0) {
+      // Output nothing if no context
+      return;
+    }
+
+    // Output markdown directly to stdout for Claude to consume
+    console.log(`<cortex-context project="${project}">`);
+    console.log(result.formatted);
+    console.log('</cortex-context>');
+  });

src/cli/index.ts

@@ -11,7 +11,8 @@ import { graphCommand } from './commands/graph';
 import { serveCommand } from './commands/serve';
 import { decayCommand } from './commands/decay';
 import { childrenCommand } from './commands/children';
-import { captureCommand, captureHookCommand, configCommand } from './commands/capture';
+import { contextCommand, contextHookCommand } from './commands/context';
+import { configCommand } from './commands/config';
 import { closeDb } from '../core/db';
 
 const program = new Command();
@@ -32,8 +33,8 @@ program.addCommand(graphCommand);
 program.addCommand(serveCommand);
 program.addCommand(decayCommand);
 program.addCommand(childrenCommand);
-program.addCommand(captureCommand);
-program.addCommand(captureHookCommand);
+program.addCommand(contextCommand);
+program.addCommand(contextHookCommand);
 program.addCommand(configCommand);
 
 program.hook('postAction', () => {

src/core/capture/config.ts

@@ -1,68 +0,0 @@
-import { getDb } from '../db';
-
-export type CaptureMode = 'always' | 'manual' | 'decisions' | 'off';
-
-export interface CaptureConfig {
-  mode: CaptureMode;
-  minLength: number;
-  excludePatterns: string[];
-  autoTag: boolean;
-  linkRelated: boolean;
-  similarityThreshold: number;
-  mergeThreshold: number;
-}
-
-const DEFAULT_CONFIG: CaptureConfig = {
-  mode: 'always',
-  minLength: 100,
-  excludePatterns: [],
-  autoTag: true,
-  linkRelated: true,
-  similarityThreshold: 0.75,
-  mergeThreshold: 0.90,
-};
-
-function ensureConfigTable(): void {
-  const db = getDb();
-  db.exec(`
-    CREATE TABLE IF NOT EXISTS system_config (
-      key TEXT PRIMARY KEY,
-      value TEXT NOT NULL,
-      updated_at INTEGER NOT NULL
-    )
-  `);
-}
-
-export function getCaptureConfig(): CaptureConfig {
-  ensureConfigTable();
-  const db = getDb();
-  const row = db.prepare('SELECT value FROM system_config WHERE key = ?').get('capture') as { value: string } | undefined;
-  if (!row) return DEFAULT_CONFIG;
-  try {
-    return { ...DEFAULT_CONFIG, ...JSON.parse(row.value) };
-  } catch {
-    return DEFAULT_CONFIG;
-  }
-}
-
-export function setCaptureConfig(updates: Partial<CaptureConfig>): CaptureConfig {
-  ensureConfigTable();
-  const db = getDb();
-  const current = getCaptureConfig();
-  const updated = { ...current, ...updates };
-
-  db.prepare(`
-    INSERT INTO system_config (key, value, updated_at) VALUES (?, ?, ?)
-    ON CONFLICT(key) DO UPDATE SET value = excluded.value, updated_at = excluded.updated_at
-  `).run('capture', JSON.stringify(updated), Date.now());
-
-  return updated;
-}
-
-export function getConfigValue<K extends keyof CaptureConfig>(key: K): CaptureConfig[K] {
-  return getCaptureConfig()[key];
-}
-
-export function setConfigValue<K extends keyof CaptureConfig>(key: K, value: CaptureConfig[K]): void {
-  setCaptureConfig({ [key]: value } as Partial<CaptureConfig>);
-}

src/core/capture/dedupe.ts

@@ -1,113 +0,0 @@
-import { listNodes, addEdge, updateNode } from '../store';
-import { getEmbedding } from '../search/ollama';
-import { cosineSimilarity } from '../search/vector';
-import { Node } from '../../types';
-import { getCaptureConfig } from './config';
-
-export interface SimilarNode {
-  node: Node;
-  similarity: number;
-}
-
-export interface DedupeResult {
-  action: 'create' | 'merge' | 'link';
-  existingNode?: Node;
-  similarity?: number;
-}
-
-export async function findSimilarNodes(
-  text: string,
-  limit: number = 5
-): Promise<SimilarNode[]> {
-  const embedding = await getEmbedding(text);
-  if (!embedding) return [];
-
-  const nodes = listNodes({ includeStale: false });
-  const withEmbeddings = nodes.filter(n => n.embedding && n.embedding.length > 0);
-
-  const scored: SimilarNode[] = [];
-  for (const node of withEmbeddings) {
-    const similarity = cosineSimilarity(embedding, node.embedding!);
-    if (similarity > 0.5) {
-      scored.push({ node, similarity });
-    }
-  }
-
-  return scored
-    .sort((a, b) => b.similarity - a.similarity)
-    .slice(0, limit);
-}
-
-export async function checkDuplicate(
-  summary: string,
-  content: string
-): Promise<DedupeResult> {
-  const config = getCaptureConfig();
-  const textToCompare = `${summary} ${content}`;
-
-  const similar = await findSimilarNodes(textToCompare, 1);
-
-  if (similar.length === 0) {
-    return { action: 'create' };
-  }
-
-  const { node, similarity } = similar[0];
-
-  if (similarity >= config.mergeThreshold) {
-    return {
-      action: 'merge',
-      existingNode: node,
-      similarity,
-    };
-  }
-
-  if (similarity >= config.similarityThreshold) {
-    return {
-      action: 'link',
-      existingNode: node,
-      similarity,
-    };
-  }
-
-  return { action: 'create' };
-}
-
-export async function mergeIntoNode(
-  existingId: string,
-  newSummary: string,
-  newContent: string,
-  newTags: string[]
-): Promise<Node | null> {
-  const existing = listNodes({ includeStale: false }).find(n => n.id === existingId);
-  if (!existing) return null;
-
-  // Append new content with timestamp
-  const timestamp = new Date().toISOString().slice(0, 10);
-  const mergedContent = existing.content
-    ? `${existing.content}\n\n---\n[${timestamp}]\n${newContent}`
-    : newContent;
-
-  // Merge tags (dedupe)
-  const mergedTags = [...new Set([...existing.tags, ...newTags])];
-
-  // Update the existing node
-  return updateNode(existingId, {
-    content: mergedContent,
-    tags: mergedTags,
-    metadata: {
-      ...existing.metadata,
-      lastMergedAt: Date.now(),
-      mergeCount: (existing.metadata.mergeCount || 0) + 1,
-    },
-  });
-}
-
-export async function linkRelatedNode(
-  newNodeId: string,
-  existingNodeId: string
-): Promise<void> {
-  addEdge(newNodeId, existingNodeId, 'relates_to', {
-    reason: 'auto-capture-similarity',
-    linkedAt: Date.now(),
-  });
-}

src/core/capture/index.ts

@@ -1,192 +0,0 @@
-import { addNode } from '../store';
-import { getCaptureConfig, CaptureConfig } from './config';
-import { extractMemoryData, shouldCapture, ExtractedMemory } from './summarize';
-import { checkDuplicate, mergeIntoNode, linkRelatedNode } from './dedupe';
-import { Node } from '../../types';
-
-export { getCaptureConfig, setCaptureConfig, CaptureMode, CaptureConfig } from './config';
-export { extractMemoryData, shouldCapture, ExtractedMemory } from './summarize';
-export { findSimilarNodes, checkDuplicate, mergeIntoNode } from './dedupe';
-
-export interface CaptureInput {
-  conversation: string;
-  sessionId?: string;
-  filesChanged?: string[];
-  source?: string;
-}
-
-export interface CaptureResult {
-  captured: boolean;
-  action: 'created' | 'merged' | 'linked' | 'skipped';
-  node?: Node;
-  reason?: string;
-}
-
-export async function captureConversation(input: CaptureInput): Promise<CaptureResult> {
-  const config = getCaptureConfig();
-
-  // Check if capture is enabled
-  if (config.mode === 'off') {
-    return { captured: false, action: 'skipped', reason: 'capture disabled' };
-  }
-
-  // Check minimum length
-  if (!shouldCapture(input.conversation, config.minLength)) {
-    return { captured: false, action: 'skipped', reason: 'conversation too short or trivial' };
-  }
-
-  // Check exclude patterns
-  for (const pattern of config.excludePatterns) {
-    try {
-      if (new RegExp(pattern, 'i').test(input.conversation)) {
-        return { captured: false, action: 'skipped', reason: `matched exclude pattern: ${pattern}` };
-      }
-    } catch {
-      // Invalid regex, skip
-    }
-  }
-
-  // Extract memory data using Ollama
-  const extracted = await extractMemoryData(input.conversation);
-  if (!extracted) {
-    return { captured: false, action: 'skipped', reason: 'failed to extract memory data' };
-  }
-
-  // For "decisions" mode, only capture if decisions were found
-  if (config.mode === 'decisions' && extracted.decisions.length === 0) {
-    return { captured: false, action: 'skipped', reason: 'no decisions found (decisions mode)' };
-  }
-
-  // Build content
-  const contentParts: string[] = [extracted.summary];
-
-  if (extracted.decisions.length > 0) {
-    contentParts.push('\n## Decisions');
-    for (const d of extracted.decisions) {
-      contentParts.push(`- ${d}`);
-    }
-  }
-
-  if (extracted.filesDiscussed.length > 0 || input.filesChanged?.length) {
-    const files = [...new Set([...extracted.filesDiscussed, ...(input.filesChanged || [])])];
-    contentParts.push('\n## Files');
-    for (const f of files) {
-      contentParts.push(`- ${f}`);
-    }
-  }
-
-  const content = contentParts.join('\n');
-
-  // Check for duplicates
-  const dedupeResult = await checkDuplicate(extracted.summary, content);
-
-  // Build tags
-  const tags = ['auto-capture'];
-  if (config.autoTag && extracted.topics.length > 0) {
-    tags.push(...extracted.topics);
-  }
-  if (input.source) {
-    tags.push(`source:${input.source}`);
-  }
-
-  if (dedupeResult.action === 'merge' && dedupeResult.existingNode) {
-    // Merge into existing node
-    const merged = await mergeIntoNode(
-      dedupeResult.existingNode.id,
-      extracted.summary,
-      content,
-      tags
-    );
-    return {
-      captured: true,
-      action: 'merged',
-      node: merged || undefined,
-      reason: `merged with existing node (similarity: ${(dedupeResult.similarity! * 100).toFixed(1)}%)`,
-    };
-  }
-
-  // Create new node
-  const node = await addNode({
-    kind: 'memory',
-    title: extracted.summary.slice(0, 100),
-    content,
-    tags,
-    status: 'active',
-    metadata: {
-      sessionId: input.sessionId,
-      filesChanged: input.filesChanged,
-      source: input.source || 'claude-code',
-      capturedAt: Date.now(),
-      decisions: extracted.decisions,
-    },
-  });
-
-  // Link to related node if found
-  if (dedupeResult.action === 'link' && dedupeResult.existingNode && config.linkRelated) {
-    await linkRelatedNode(node.id, dedupeResult.existingNode.id);
-    return {
-      captured: true,
-      action: 'linked',
-      node,
-      reason: `linked to related node (similarity: ${(dedupeResult.similarity! * 100).toFixed(1)}%)`,
-    };
-  }
-
-  return {
-    captured: true,
-    action: 'created',
-    node,
-  };
-}
-
-export async function captureText(
-  text: string,
-  options: { tags?: string[]; source?: string } = {}
-): Promise<CaptureResult> {
-  const config = getCaptureConfig();
-
-  if (config.mode === 'off') {
-    return { captured: false, action: 'skipped', reason: 'capture disabled' };
-  }
-
-  // Simple text capture - no summarization needed
-  const dedupeResult = await checkDuplicate(text, text);
-
-  const tags = ['manual-capture', ...(options.tags || [])];
-  if (options.source) {
-    tags.push(`source:${options.source}`);
-  }
-
-  if (dedupeResult.action === 'merge' && dedupeResult.existingNode) {
-    const merged = await mergeIntoNode(
-      dedupeResult.existingNode.id,
-      text.slice(0, 100),
-      text,
-      tags
-    );
-    return {
-      captured: true,
-      action: 'merged',
-      node: merged || undefined,
-    };
-  }
-
-  const node = await addNode({
-    kind: 'memory',
-    title: text.slice(0, 100),
-    content: text,
-    tags,
-    status: 'active',
-    metadata: {
-      source: options.source || 'manual',
-      capturedAt: Date.now(),
-    },
-  });
-
-  if (dedupeResult.action === 'link' && dedupeResult.existingNode && config.linkRelated) {
-    await linkRelatedNode(node.id, dedupeResult.existingNode.id);
-    return { captured: true, action: 'linked', node };
-  }
-
-  return { captured: true, action: 'created', node };
-}

src/core/capture/summarize.ts

@@ -1,160 +0,0 @@
-import { generate, isGenAvailable } from '../search/ollamaGen';
-
-export interface ExtractedMemory {
-  summary: string;
-  topics: string[];
-  decisions: string[];
-  filesDiscussed: string[];
-}
-
-const SUMMARIZE_PROMPT = `Summarize this Claude Code conversation in 1-2 sentences.
-Focus on: what was accomplished, decisions made, problems solved.
-Do NOT include greetings or meta-discussion.
-
-Conversation:
-{conversation}
-
-Summary:`;
-
-const EXTRACT_PROMPT = `Extract from this conversation:
-1. Main topics (as tags, lowercase, hyphenated, max 5)
-2. Decisions made (if any, max 3)
-3. Code files discussed or modified (if any)
-
-Conversation:
-{conversation}
-
-Output as JSON only, no explanation:
-{"topics": [], "decisions": [], "files": []}`;
-
-export async function summarizeConversation(conversation: string): Promise<string | null> {
-  if (!(await isGenAvailable())) return null;
-
-  const prompt = SUMMARIZE_PROMPT.replace('{conversation}', conversation);
-  return generate(prompt);
-}
-
-export async function extractMemoryData(conversation: string): Promise<ExtractedMemory | null> {
-  const available = await isGenAvailable();
-
-  // Get summary
-  const summary = available
-    ? await summarizeConversation(conversation)
-    : createFallbackSummary(conversation);
-
-  if (!summary) return null;
-
-  // Extract structured data
-  let topics: string[] = [];
-  let decisions: string[] = [];
-  let filesDiscussed: string[] = [];
-
-  if (available) {
-    const extractPrompt = EXTRACT_PROMPT.replace('{conversation}', conversation);
-    const extracted = await generate(extractPrompt);
-
-    if (extracted) {
-      try {
-        // Find JSON in response (handle cases where model adds explanation)
-        const jsonMatch = extracted.match(/\{[\s\S]*\}/);
-        if (jsonMatch) {
-          const data = JSON.parse(jsonMatch[0]);
-          topics = Array.isArray(data.topics) ? data.topics.slice(0, 5) : [];
-          decisions = Array.isArray(data.decisions) ? data.decisions.slice(0, 3) : [];
-          filesDiscussed = Array.isArray(data.files) ? data.files : [];
-        }
-      } catch {
-        // Fall back to basic extraction
-        topics = extractTopicsBasic(conversation);
-        filesDiscussed = extractFilesBasic(conversation);
-      }
-    }
-  } else {
-    // Basic extraction without AI
-    topics = extractTopicsBasic(conversation);
-    filesDiscussed = extractFilesBasic(conversation);
-  }
-
-  return {
-    summary,
-    topics: sanitizeTags(topics),
-    decisions,
-    filesDiscussed,
-  };
-}
-
-function createFallbackSummary(conversation: string): string {
-  // Take first meaningful line as summary
-  const lines = conversation.split('\n').filter(l => l.trim().length > 20);
-  if (lines.length === 0) return 'Conversation captured';
-
-  const first = lines[0].trim();
-  return first.length > 150 ? first.slice(0, 147) + '...' : first;
-}
-
-function extractTopicsBasic(conversation: string): string[] {
-  const topics: string[] = [];
-  const lower = conversation.toLowerCase();
-
-  // Common programming topics
-  const keywords = [
-    'typescript', 'javascript', 'python', 'rust', 'go',
-    'react', 'vue', 'angular', 'node', 'express',
-    'database', 'sql', 'api', 'auth', 'authentication',
-    'bug', 'fix', 'error', 'refactor', 'test', 'deploy',
-    'git', 'docker', 'kubernetes', 'aws', 'cloud',
-  ];
-
-  for (const kw of keywords) {
-    if (lower.includes(kw) && topics.length < 5) {
-      topics.push(kw);
-    }
-  }
-
-  return topics;
-}
-
-function extractFilesBasic(conversation: string): string[] {
-  const files: string[] = [];
-
-  // Match file paths
-  const filePatterns = [
-    /[\w\-\/]+\.(ts|js|tsx|jsx|py|rs|go|md|json|yaml|yml|toml|sql)/gi,
-    /src\/[\w\-\/]+/gi,
-  ];
-
-  for (const pattern of filePatterns) {
-    const matches = conversation.match(pattern);
-    if (matches) {
-      for (const m of matches) {
-        if (!files.includes(m) && files.length < 10) {
-          files.push(m);
-        }
-      }
-    }
-  }
-
-  return files;
-}
-
-function sanitizeTags(tags: string[]): string[] {
-  return tags
-    .map(t => t.toLowerCase().trim().replace(/\s+/g, '-').replace(/[^a-z0-9\-]/g, ''))
-    .filter(t => t.length > 0 && t.length < 30);
-}
-
-export function shouldCapture(conversation: string, minLength: number): boolean {
-  // Skip very short conversations
-  if (conversation.length < minLength) return false;
-
-  // Skip if mostly greetings/pleasantries
-  const lower = conversation.toLowerCase();
-  const greetings = ['hello', 'hi ', 'hey', 'thanks', 'thank you', 'goodbye', 'bye'];
-  const greetingCount = greetings.filter(g => lower.includes(g)).length;
-
-  // If more than half the "content" is greetings, skip
-  const words = conversation.split(/\s+/).length;
-  if (words < 20 && greetingCount > 2) return false;
-
-  return true;
-}

src/core/config.ts

@@ -0,0 +1,119 @@
+import { getDb } from './db';
+
+export interface CortexConfig {
+  // Context injection settings
+  'context.maxTokens': number;
+  'context.maxNodes': number;
+  'context.includeRecent': boolean;
+  'context.includeProject': boolean;
+  'context.includeTasks': boolean;
+  'context.includeDecisions': boolean;
+}
+
+const DEFAULTS: CortexConfig = {
+  'context.maxTokens': 4000,
+  'context.maxNodes': 20,
+  'context.includeRecent': true,
+  'context.includeProject': true,
+  'context.includeTasks': true,
+  'context.includeDecisions': true,
+};
+
+/**
+ * Ensure the config table exists
+ */
+function ensureConfigTable(): void {
+  const db = getDb();
+  db.exec(`
+    CREATE TABLE IF NOT EXISTS config (
+      key TEXT PRIMARY KEY,
+      value TEXT NOT NULL,
+      updated_at INTEGER NOT NULL
+    )
+  `);
+}
+
+/**
+ * Get a config value
+ */
+export function getConfig<K extends keyof CortexConfig>(key: K): CortexConfig[K] {
+  ensureConfigTable();
+  const db = getDb();
+  const row = db.prepare('SELECT value FROM config WHERE key = ?').get(key) as { value: string } | undefined;
+
+  if (!row) {
+    return DEFAULTS[key];
+  }
+
+  // Parse based on expected type
+  const defaultValue = DEFAULTS[key];
+  if (typeof defaultValue === 'boolean') {
+    return (row.value === 'true') as unknown as CortexConfig[K];
+  }
+  if (typeof defaultValue === 'number') {
+    return parseInt(row.value, 10) as unknown as CortexConfig[K];
+  }
+  return row.value as unknown as CortexConfig[K];
+}
+
+/**
+ * Set a config value
+ */
+export function setConfig<K extends keyof CortexConfig>(key: K, value: CortexConfig[K]): void {
+  ensureConfigTable();
+  const db = getDb();
+  const now = Date.now();
+  const strValue = String(value);
+
+  db.prepare(`
+    INSERT INTO config (key, value, updated_at)
+    VALUES (?, ?, ?)
+    ON CONFLICT(key) DO UPDATE SET value = ?, updated_at = ?
+  `).run(key, strValue, now, strValue, now);
+}
+
+/**
+ * List all config values
+ */
+export function listConfig(): Array<{ key: string; value: string; isDefault: boolean }> {
+  ensureConfigTable();
+  const db = getDb();
+  const rows = db.prepare('SELECT key, value FROM config').all() as Array<{ key: string; value: string }>;
+  const stored = new Map(rows.map(r => [r.key, r.value]));
+
+  const result: Array<{ key: string; value: string; isDefault: boolean }> = [];
+
+  for (const [key, defaultValue] of Object.entries(DEFAULTS)) {
+    const storedValue = stored.get(key);
+    if (storedValue !== undefined) {
+      result.push({ key, value: storedValue, isDefault: false });
+    } else {
+      result.push({ key, value: String(defaultValue), isDefault: true });
+    }
+  }
+
+  return result;
+}
+
+/**
+ * Reset a config key to default
+ */
+export function resetConfig(key: keyof CortexConfig): void {
+  ensureConfigTable();
+  const db = getDb();
+  db.prepare('DELETE FROM config WHERE key = ?').run(key);
+}
+
+/**
+ * Get context config as a structured object
+ */
+export function getContextConfig() {
+  return {
+    maxTokens: getConfig('context.maxTokens'),
+    maxNodes: getConfig('context.maxNodes'),
+    includeRecent: getConfig('context.includeRecent'),
+    includeProject: getConfig('context.includeProject'),
+    includeTasks: getConfig('context.includeTasks'),
+    includeDecisions: getConfig('context.includeDecisions'),
+  };
+}

src/core/context.ts

@@ -0,0 +1,291 @@
+import { getDb } from './db';
+import { query, listNodes } from './store';
+import { Node, NodeKind } from '../types';
+import { getContextConfig } from './config';
+
+export interface RankedNode {
+  node: Node;
+  score: number;
+  reason: 'recent' | 'project' | 'task' | 'decision' | 'semantic';
+}
+
+export interface ContextConfig {
+  maxTokens: number;
+  maxNodes: number;
+  includeRecent: boolean;
+  includeProject: boolean;
+  includeTasks: boolean;
+  includeDecisions: boolean;
+}
+
+export const DEFAULT_CONTEXT_CONFIG: ContextConfig = {
+  maxTokens: 4000,
+  maxNodes: 20,
+  includeRecent: true,
+  includeProject: true,
+  includeTasks: true,
+  includeDecisions: true,
+};
+
+/**
+ * Get nodes accessed within the last N hours
+ */
+export function getRecentNodes(hours: number = 48, limit: number = 10): Node[] {
+  const db = getDb();
+  const cutoff = Date.now() - hours * 60 * 60 * 1000;
+
+  const rows = db.prepare(`
+    SELECT * FROM nodes
+    WHERE is_stale = 0 AND last_accessed_at > ?
+    ORDER BY last_accessed_at DESC
+    LIMIT ?
+  `).all(cutoff, limit) as any[];
+
+  return rows.map(rowToNode);
+}
+
+/**
+ * Get nodes tagged with a specific project name
+ */
+export function getProjectNodes(projectName: string, limit: number = 10): Node[] {
+  return listNodes({ tags: [projectName.toLowerCase()], limit });
+}
+
+/**
+ * Get open tasks (status: todo, in_progress, or active)
+ */
+export function getOpenTasks(limit: number = 10): Node[] {
+  const db = getDb();
+
+  const rows = db.prepare(`
+    SELECT * FROM nodes
+    WHERE is_stale = 0
+      AND kind = 'task'
+      AND (status = 'todo' OR status = 'in_progress' OR status = 'active' OR status IS NULL)
+    ORDER BY updated_at DESC
+    LIMIT ?
+  `).all(limit) as any[];
+
+  return rows.map(rowToNode);
+}
+
+/**
+ * Get recent decisions
+ */
+export function getRecentDecisions(limit: number = 5): Node[] {
+  return listNodes({ kind: 'decision', limit });
+}
+
+/**
+ * Get semantic matches for a query
+ */
+export async function getSemanticMatches(queryText: string, limit: number = 10): Promise<RankedNode[]> {
+  const results = await query(queryText, { limit });
+  return results.map(r => ({
+    node: r.node,
+    score: r.score,
+    reason: 'semantic' as const,
+  }));
+}
+
+/**
+ * Estimate token count for a node (rough approximation)
+ */
+function estimateTokens(node: Node): number {
+  const text = `${node.title} ${node.content || ''} ${node.tags.join(' ')}`;
+  // Rough estimate: 1 token ≈ 4 characters
+  return Math.ceil(text.length / 4);
+}
+
+/**
+ * Deduplicate and rank nodes, keeping highest score per node
+ */
+function dedupeAndRank(candidates: RankedNode[]): RankedNode[] {
+  const byId = new Map<string, RankedNode>();
+
+  for (const c of candidates) {
+    const existing = byId.get(c.node.id);
+    if (!existing || c.score > existing.score) {
+      byId.set(c.node.id, c);
+    }
+  }
+
+  return Array.from(byId.values()).sort((a, b) => b.score - a.score);
+}
+
+/**
+ * Select nodes within token budget
+ */
+function selectWithinBudget(candidates: RankedNode[], maxTokens: number, maxNodes: number): RankedNode[] {
+  const selected: RankedNode[] = [];
+  let totalTokens = 0;
+
+  for (const c of candidates) {
+    if (selected.length >= maxNodes) break;
+
+    const tokens = estimateTokens(c.node);
+    if (totalTokens + tokens > maxTokens) continue;
+
+    selected.push(c);
+    totalTokens += tokens;
+  }
+
+  return selected;
+}
+
+/**
+ * Group nodes by their reason
+ */
+function groupByReason(nodes: RankedNode[]): Record<string, RankedNode[]> {
+  const groups: Record<string, RankedNode[]> = {};
+
+  for (const n of nodes) {
+    if (!groups[n.reason]) groups[n.reason] = [];
+    groups[n.reason].push(n);
+  }
+
+  return groups;
+}
+
+/**
+ * Format a single node for context output
+ */
+function formatNode(ranked: RankedNode): string {
+  const n = ranked.node;
+  const lines: string[] = [];
+
+  lines.push(`### ${n.title}`);
+  if (n.content) {
+    // Truncate long content
+    const content = n.content.length > 500 ? n.content.slice(0, 500) + '...' : n.content;
+    lines.push(content);
+  }
+  if (n.tags.length) {
+    lines.push(`*Tags: ${n.tags.join(', ')}*`);
+  }
+
+  return lines.join('\n');
+}
+
+/**
+ * Format context as markdown
+ */
+export function formatContext(nodes: RankedNode[]): string {
+  if (nodes.length === 0) {
+    return '*No relevant context found.*';
+  }
+
+  const groups = groupByReason(nodes);
+  const sections: string[] = [];
+
+  // Order: project > decisions > tasks > recent > semantic
+  const order: Array<{ key: string; title: string }> = [
+    { key: 'project', title: 'Project Context' },
+    { key: 'decision', title: 'Key Decisions' },
+    { key: 'task', title: 'Open Tasks' },
+    { key: 'recent', title: 'Recent Activity' },
+    { key: 'semantic', title: 'Related Memories' },
+  ];
+
+  for (const { key, title } of order) {
+    const group = groups[key];
+    if (group?.length) {
+      sections.push(`## ${title}\n\n${group.map(formatNode).join('\n\n')}`);
+    }
+  }
+
+  return sections.join('\n\n---\n\n');
+}
+
+/**
+ * Main context gathering function
+ */
+export async function gatherContext(
+  options: {
+    project?: string;
+    semanticQuery?: string;
+    config?: Partial<ContextConfig>;
+  } = {}
+): Promise<{ nodes: RankedNode[]; formatted: string }> {
+  // Load stored config, then override with any passed options
+  const storedConfig = getContextConfig();
+  const config = { ...storedConfig, ...options.config };
+  const candidates: RankedNode[] = [];
+
+  // 1. Project-specific nodes (highest priority)
+  if (config.includeProject && options.project) {
+    const projectNodes = getProjectNodes(options.project, 10);
+    candidates.push(...projectNodes.map(node => ({
+      node,
+      score: 0.95,
+      reason: 'project' as const,
+    })));
+  }
+
+  // 2. Recent decisions
+  if (config.includeDecisions) {
+    const decisions = getRecentDecisions(5);
+    candidates.push(...decisions.map(node => ({
+      node,
+      score: 0.85,
+      reason: 'decision' as const,
+    })));
+  }
+
+  // 3. Open tasks
+  if (config.includeTasks) {
+    const tasks = getOpenTasks(5);
+    candidates.push(...tasks.map(node => ({
+      node,
+      score: 0.80,
+      reason: 'task' as const,
+    })));
+  }
+
+  // 4. Recent activity
+  if (config.includeRecent) {
+    const recent = getRecentNodes(48, 10);
+    candidates.push(...recent.map(node => ({
+      node,
+      score: 0.70,
+      reason: 'recent' as const,
+    })));
+  }
+
+  // 5. Semantic search on project context
+  if (options.semanticQuery) {
+    const semantic = await getSemanticMatches(options.semanticQuery, 10);
+    // Scale semantic scores to fit our priority scheme
+    candidates.push(...semantic.map(r => ({
+      ...r,
+      score: r.score * 0.6, // Max 0.6 for semantic matches
+    })));
+  }
+
+  // Dedupe, rank, and select within budget
+  const ranked = dedupeAndRank(candidates);
+  const selected = selectWithinBudget(ranked, config.maxTokens, config.maxNodes);
+
+  return {
+    nodes: selected,
+    formatted: formatContext(selected),
+  };
+}
+
+// Helper to convert DB row to Node (duplicated from store.ts to avoid circular deps)
+function rowToNode(row: any): Node {
+  return {
+    id: row.id,
+    kind: row.kind,
+    title: row.title,
+    content: row.content,
+    status: row.status ?? undefined,
+    tags: JSON.parse(row.tags || '[]'),
+    metadata: JSON.parse(row.metadata || '{}'),
+    embedding: null, // Don't load embeddings for context
+    createdAt: row.created_at,
+    updatedAt: row.updated_at,
+    lastAccessedAt: row.last_accessed_at ?? row.updated_at,
+    isStale: !!row.is_stale,
+  };
+}

src/mcp/index.ts

@@ -367,6 +367,37 @@ server.tool(
   }
 );
 
+// --- memory_context ---
+import { gatherContext, DEFAULT_CONTEXT_CONFIG } from '../core/context';
+
+server.tool(
+  'memory_context',
+  'Get relevant context for a Claude session. Gathers recent activity, project-specific nodes, open tasks, and decisions. Use at session start.',
+  {
+    project: z.string().optional().describe('Project name to filter by (e.g. "cortex")'),
+    query: z.string().optional().describe('Optional semantic search query'),
+    maxTokens: z.number().optional().describe(`Max tokens in output (default ${DEFAULT_CONTEXT_CONFIG.maxTokens})`),
+    maxNodes: z.number().optional().describe(`Max nodes to include (default ${DEFAULT_CONTEXT_CONFIG.maxNodes})`),
+  },
+  async ({ project, query: semanticQuery, maxTokens, maxNodes }) => {
+    const result = await gatherContext({
+      project,
+      semanticQuery,
+      config: {
+        maxTokens: maxTokens ?? DEFAULT_CONTEXT_CONFIG.maxTokens,
+        maxNodes: maxNodes ?? DEFAULT_CONTEXT_CONFIG.maxNodes,
+      },
+    });
+
+    return {
+      content: [{
+        type: 'text' as const,
+        text: result.formatted,
+      }],
+    };
+  }
+);
+
 // --- memory_summary ---
 import { getCachedSummary, generateSummary } from '../core/summary';
 
@@ -385,69 +416,6 @@ server.tool(
   }
 );
 
-// --- memory_capture ---
-import { captureConversation, captureText, getCaptureConfig, setCaptureConfig, CaptureMode } from '../core/capture';
-
-server.tool(
-  'memory_capture',
-  'Capture a conversation or context as a memory node. Uses AI to summarize and extract key information.',
-  {
-    conversation: z.string().describe('The conversation or context to capture'),
-    sessionId: z.string().optional().describe('Session identifier'),
-    filesChanged: z.array(z.string()).optional().describe('List of files that were changed'),
-    source: z.string().optional().describe('Source identifier (default: claude-code)'),
-  },
-  async ({ conversation, sessionId, filesChanged, source }) => {
-    const result = await captureConversation({
-      conversation,
-      sessionId,
-      filesChanged,
-      source: source || 'claude-code',
-    });
-    return { content: [{ type: 'text' as const, text: serialize(result) }] };
-  }
-);
-
-server.tool(
-  'memory_remember',
-  'Remember a piece of text for later. Simpler than memory_capture - for quick notes and facts.',
-  {
-    text: z.string().describe('The text to remember'),
-    tags: z.array(z.string()).optional().describe('Tags to apply'),
-  },
-  async ({ text, tags }) => {
-    const result = await captureText(text, { tags, source: 'remember' });
-    return { content: [{ type: 'text' as const, text: serialize(result) }] };
-  }
-);
-
-server.tool(
-  'memory_capture_config',
-  'Get or set auto-capture configuration',
-  {
-    action: z.enum(['get', 'set']).describe('Action to perform'),
-    mode: z.enum(['always', 'manual', 'decisions', 'off']).optional().describe('Capture mode (for set)'),
-    minLength: z.number().optional().describe('Minimum conversation length (for set)'),
-    autoTag: z.boolean().optional().describe('Auto-generate tags (for set)'),
-    linkRelated: z.boolean().optional().describe('Auto-link related nodes (for set)'),
-  },
-  async ({ action, mode, minLength, autoTag, linkRelated }) => {
-    if (action === 'get') {
-      const config = getCaptureConfig();
-      return { content: [{ type: 'text' as const, text: serialize(config) }] };
-    }
-
-    const updates: Partial<{ mode: CaptureMode; minLength: number; autoTag: boolean; linkRelated: boolean }> = {};
-    if (mode !== undefined) updates.mode = mode;
-    if (minLength !== undefined) updates.minLength = minLength;
-    if (autoTag !== undefined) updates.autoTag = autoTag;
-    if (linkRelated !== undefined) updates.linkRelated = linkRelated;
-
-    const config = setCaptureConfig(updates);
-    return { content: [{ type: 'text' as const, text: serialize({ updated: true, config }) }] };
-  }
-);
-
 // --- memory_prompt ---
 import { interpretAndExecute } from '../core/prompt/interpreter';
 

src/server/routes.ts

@@ -4,6 +4,7 @@ import { getConnections, buildTree } from '../core/graph';
 import { getDb } from '../core/db';
 import { determineGroupingStrategy, groupResults } from './queryOrganizer';
 import { getLastReport, markDirty, runMaintenance } from './heartbeat';
+import { gatherContext } from '../core/context';
 
 const router = Router();
 
@@ -166,6 +167,42 @@ router.post('/maintenance/run', async (_req: Request, res: Response) => {
   }
 });
 
+// Context — get session context for Claude
+router.get('/context', async (req: Request, res: Response) => {
+  try {
+    const project = req.query.project as string | undefined;
+    const semanticQuery = req.query.query as string | undefined;
+    const maxTokens = req.query.maxTokens ? parseInt(req.query.maxTokens as string) : undefined;
+    const maxNodes = req.query.maxNodes ? parseInt(req.query.maxNodes as string) : undefined;
+    const format = req.query.format as string || 'markdown';
+
+    const result = await gatherContext({
+      project,
+      semanticQuery,
+      config: { maxTokens, maxNodes } as any,
+    });
+
+    if (format === 'json') {
+      res.json({
+        project,
+        nodeCount: result.nodes.length,
+        nodes: result.nodes.map(r => ({
+          id: r.node.id,
+          kind: r.node.kind,
+          title: r.node.title,
+          score: r.score,
+          reason: r.reason,
+        })),
+        formatted: result.formatted,
+      });
+    } else {
+      res.type('text/markdown').send(result.formatted);
+    }
+  } catch (err: any) {
+    res.status(500).json({ error: err.message });
+  }
+});
+
 // Prompt — AI-driven natural language instruction
 router.post('/prompt', async (req: Request, res: Response) => {
   try {