feat: add where command, fix MCP file/kind params, restore agent work

- Add where command for fast symbol/file lookup (CLI, MCP, programmatic API)
- Fix fn_deps, fn_impact, context MCP handlers to pass file/kind params
- Add whereData mock to all MCP test handler mocks
- Add test fixture test file nodes and low-confidence edge
- Add whereData integration tests and noTests filtering test

Author: github-actions[bot]

package-lock.json

@@ -246,4 +246,23 @@ describe('contextData', () => {
       }
     }
   });
+
+  test('exact match ranks first', () => {
+    const data = contextData('openDb', dbPath);
+    // openDb should be first result since it's an exact match
+    expect(data.results[0].name).toBe('openDb');
+  });
+
+  test('--file scopes to matching file', () => {
+    const data = contextData('main', dbPath, { file: 'caller.js' });
+    expect(data.results.length).toBeGreaterThanOrEqual(1);
+    for (const r of data.results) {
+      expect(r.file).toContain('caller.js');
+    }
+  });
+
+  test('--kind method returns empty for function fixtures', () => {
+    const data = contextData('openDb', dbPath, { kind: 'method' });
+    expect(data.results).toHaveLength(0);
+  });
 });

tests/integration/context.test.js

@@ -398,6 +398,7 @@ describe('startMCPServer handler dispatch', () => {
       fnImpactData: vi.fn(),
       contextData: vi.fn(),
       explainData: vi.fn(),
+      whereData: vi.fn(),
       diffImpactData: diffImpactMock,
       listFunctionsData: vi.fn(),
     }));
@@ -453,6 +454,7 @@ describe('startMCPServer handler dispatch', () => {
       fnImpactData: vi.fn(),
       contextData: vi.fn(),
       explainData: vi.fn(),
+      whereData: vi.fn(),
       diffImpactData: vi.fn(),
       listFunctionsData: listFnMock,
     }));