fix: init creates data/senses dir, generates .js templates without TS annotations

- Add mkdirSync for data/senses/ in init command (#23)
- Add defensive mkdirSync in sense-runtime before DB open (#23)
- Change init template output from index.ts to index.js (#24)
- Remove TypeScript type annotations from CPU usage template (#25)

Closes #23, closes #24, closes #25

packages/cli/src/commands/init.ts

@@ -48,9 +48,9 @@ export const cpuUsage = sqliteTable("cpu_usage", {
 });
 `;
 
-const CPU_INDEX_TS = `import { cpus } from "node:os";
+const CPU_INDEX_JS = `import { cpus } from "node:os";
 
-export async function compute(): Promise<unknown> {
+export async function compute() {
   const cpuList = cpus();
 
   let totalIdle = 0;
@@ -135,13 +135,14 @@ export const initCommand = defineCommand({
     }
 
     mkdirSync(join(nerveRoot, "data"), { recursive: true });
+    mkdirSync(join(nerveRoot, "data", "senses"), { recursive: true });
     mkdirSync(join(nerveRoot, "senses", "cpu-usage", "migrations"), { recursive: true });
 
     writeFile(join(nerveRoot, "nerve.yaml"), NERVE_YAML);
     writeFile(join(nerveRoot, "package.json"), PACKAGE_JSON);
     writeFile(join(nerveRoot, ".gitignore"), GITIGNORE);
     writeFile(join(nerveRoot, "senses", "cpu-usage", "schema.ts"), CPU_SCHEMA_TS);
-    writeFile(join(nerveRoot, "senses", "cpu-usage", "index.ts"), CPU_INDEX_TS);
+    writeFile(join(nerveRoot, "senses", "cpu-usage", "index.js"), CPU_INDEX_JS);
     writeFile(
       join(nerveRoot, "senses", "cpu-usage", "migrations", "0001_init.sql"),
       CPU_MIGRATION_SQL,

packages/daemon/src/__tests__/kernel-workflow-integration.test.ts

@@ -0,0 +1,418 @@
+/**
+ * Integration tests for Kernel + WorkflowManager integration.
+ *
+ * Verifies that sense signals trigger workflow runs via workflow reflexes,
+ * that workflow events are logged, that reloadConfig handles workflow changes,
+ * and that graceful shutdown stops workflow workers.
+ *
+ * Uses mocked child_process.fork to avoid real subprocesses.
+ */
+
+import { EventEmitter } from "node:events";
+
+import type { NerveConfig } from "@uncaged/nerve-core";
+import { afterEach, beforeEach, describe, expect, it, vi } from "vitest";
+
+// ---------------------------------------------------------------------------
+// Mock child_process.fork before importing kernel
+// ---------------------------------------------------------------------------
+
+type MockChild = EventEmitter & {
+  send: ReturnType<typeof vi.fn>;
+  kill: ReturnType<typeof vi.fn>;
+  connected: boolean;
+  exitCode: number | null;
+  pid: number;
+};
+
+const mockChildren: MockChild[] = [];
+
+function makeMockChild(pid = 1): MockChild {
+  const child = new EventEmitter() as MockChild;
+  child.connected = true;
+  child.exitCode = null;
+  child.pid = pid;
+  child.send = vi.fn((msg: unknown) => {
+    if (
+      msg !== null &&
+      typeof msg === "object" &&
+      (msg as Record<string, unknown>).type === "shutdown"
+    ) {
+      setImmediate(() => {
+        child.exitCode = 0;
+        child.connected = false;
+        child.emit("exit", 0, null);
+      });
+    }
+  });
+  child.kill = vi.fn((_signal?: string) => {
+    child.exitCode = 1;
+    child.connected = false;
+    child.emit("exit", null, _signal ?? "SIGKILL");
+  });
+  return child;
+}
+
+vi.mock("node:child_process", () => ({
+  fork: vi.fn((_script: string, _args: string[], _opts: unknown) => {
+    const child = makeMockChild(mockChildren.length + 1);
+    mockChildren.push(child);
+    return child;
+  }),
+}));
+
+// Import after mock is set up
+const { createKernel } = await import("../kernel.js");
+
+// ---------------------------------------------------------------------------
+// Helpers
+// ---------------------------------------------------------------------------
+
+function makeLogStore() {
+  return {
+    append: vi.fn(),
+    query: vi.fn(() => []),
+    getMeta: vi.fn(() => null),
+    setMeta: vi.fn(),
+    upsertWorkflowRun: vi.fn(),
+    appendWithWorkflowUpdate: vi.fn(),
+    getWorkflowRun: vi.fn(() => null),
+    getActiveWorkflowRuns: vi.fn(() => []),
+    close: vi.fn(),
+  };
+}
+
+function makeConfig(overrides: Partial<NerveConfig> = {}): NerveConfig {
+  return {
+    senses: {
+      "cpu-usage": { group: "system", throttle: null, timeout: null, gracePeriod: null },
+    },
+    reflexes: [],
+    workflows: null,
+    ...overrides,
+  };
+}
+
+// ---------------------------------------------------------------------------
+// Tests
+// ---------------------------------------------------------------------------
+
+describe("kernel + workflowManager integration", () => {
+  beforeEach(() => {
+    mockChildren.length = 0;
+    vi.useFakeTimers({ shouldAdvanceTime: true });
+  });
+
+  afterEach(async () => {
+    vi.useRealTimers();
+    vi.clearAllMocks();
+  });
+
+  describe("sense signal triggers workflow via reflex", () => {
+    it("calls workflowManager.startWorkflow when a sense signal fires on a workflow reflex", async () => {
+      const logStore = makeLogStore();
+      const config = makeConfig({
+        senses: {
+          "cpu-usage": { group: "system", throttle: null, timeout: null, gracePeriod: null },
+        },
+        reflexes: [{ kind: "workflow", workflow: "my-workflow", on: ["cpu-usage"] }],
+        workflows: { "my-workflow": { concurrency: 2, overflow: "drop" } },
+      });
+
+      const kernel = createKernel(config, "/tmp/nerve-test", {
+        workerScript: "fake-worker.js",
+        logStore,
+      });
+
+      // Emit a signal from "cpu-usage" on the bus
+      const { createSignalBus } = await import("../signal-bus.js");
+      void createSignalBus; // ensure import resolves
+      kernel.bus.emit({ id: 1, senseId: "cpu-usage", payload: { value: 80 }, ts: Date.now() });
+
+      // The workflow worker should be spawned (one for the sense group, one for workflow)
+      // The sense group worker is mockChildren[0]; the workflow worker is mockChildren[1]
+      // We need to check that a start-thread message was sent to the workflow worker
+      const workflowWorker = mockChildren.find((c) =>
+        (c.send as ReturnType<typeof vi.fn>).mock.calls.some(
+          ([msg]: [unknown]) =>
+            msg !== null &&
+            typeof msg === "object" &&
+            (msg as Record<string, unknown>).type === "start-thread",
+        ),
+      );
+      expect(workflowWorker).toBeDefined();
+
+      const stopPromise = kernel.stop();
+      await vi.runAllTimersAsync();
+      await stopPromise;
+    });
+
+    it("passes the signal payload as triggerPayload to the workflow", async () => {
+      const logStore = makeLogStore();
+      const config = makeConfig({
+        senses: {
+          "cpu-usage": { group: "system", throttle: null, timeout: null, gracePeriod: null },
+        },
+        reflexes: [{ kind: "workflow", workflow: "alert-workflow", on: ["cpu-usage"] }],
+        workflows: { "alert-workflow": { concurrency: 1, overflow: "drop" } },
+      });
+
+      const kernel = createKernel(config, "/tmp/nerve-test", {
+        workerScript: "fake-worker.js",
+        logStore,
+      });
+
+      const payload = { level: "critical", value: 99 };
+      kernel.bus.emit({ id: 1, senseId: "cpu-usage", payload, ts: Date.now() });
+
+      // Find the start-thread call and verify triggerPayload
+      const startThreadCall = mockChildren
+        .flatMap((c) => (c.send as ReturnType<typeof vi.fn>).mock.calls as [unknown][])
+        .find(
+          ([msg]) =>
+            msg !== null &&
+            typeof msg === "object" &&
+            (msg as Record<string, unknown>).type === "start-thread",
+        );
+
+      expect(startThreadCall).toBeDefined();
+      expect(startThreadCall?.[0]).toMatchObject({
+        type: "start-thread",
+        workflow: "alert-workflow",
+        triggerPayload: payload,
+      });
+
+      const stopPromise = kernel.stop();
+      await vi.runAllTimersAsync();
+      await stopPromise;
+    });
+
+    it("does not trigger workflow when signal senseId is not in 'on' list", async () => {
+      const logStore = makeLogStore();
+      const config = makeConfig({
+        senses: {
+          "cpu-usage": { group: "system", throttle: null, timeout: null, gracePeriod: null },
+          "disk-io": { group: "system", throttle: null, timeout: null, gracePeriod: null },
+        },
+        reflexes: [{ kind: "workflow", workflow: "my-workflow", on: ["disk-io"] }],
+        workflows: { "my-workflow": { concurrency: 1, overflow: "drop" } },
+      });
+
+      const kernel = createKernel(config, "/tmp/nerve-test", {
+        workerScript: "fake-worker.js",
+        logStore,
+      });
+
+      // Emit signal from cpu-usage — NOT in the workflow's "on" list
+      kernel.bus.emit({ id: 1, senseId: "cpu-usage", payload: 50, ts: Date.now() });
+
+      // No workflow worker should have been spawned (only the sense group worker)
+      const workflowWorkerSpawned = mockChildren.some((c) =>
+        (c.send as ReturnType<typeof vi.fn>).mock.calls.some(
+          ([msg]: [unknown]) =>
+            msg !== null &&
+            typeof msg === "object" &&
+            (msg as Record<string, unknown>).type === "start-thread",
+        ),
+      );
+      expect(workflowWorkerSpawned).toBe(false);
+
+      const stopPromise = kernel.stop();
+      await vi.runAllTimersAsync();
+      await stopPromise;
+    });
+  });
+
+  describe("workflow events are logged", () => {
+    it("logs a 'started' event when workflow thread is triggered", async () => {
+      const logStore = makeLogStore();
+      const config = makeConfig({
+        senses: {
+          "cpu-usage": { group: "system", throttle: null, timeout: null, gracePeriod: null },
+        },
+        reflexes: [{ kind: "workflow", workflow: "log-test-workflow", on: ["cpu-usage"] }],
+        workflows: { "log-test-workflow": { concurrency: 2, overflow: "drop" } },
+      });
+
+      const kernel = createKernel(config, "/tmp/nerve-test", {
+        workerScript: "fake-worker.js",
+        logStore,
+      });
+
+      kernel.bus.emit({ id: 1, senseId: "cpu-usage", payload: null, ts: Date.now() });
+
+      expect(logStore.upsertWorkflowRun).toHaveBeenCalledWith(
+        expect.objectContaining({ source: "workflow", type: "started" }),
+        expect.objectContaining({ workflow: "log-test-workflow", status: "started" }),
+      );
+
+      const stopPromise = kernel.stop();
+      await vi.runAllTimersAsync();
+      await stopPromise;
+    });
+  });
+
+  describe("reloadConfig handles workflow changes", () => {
+    it("new workflow reflexes are active after reloadConfig", async () => {
+      const logStore = makeLogStore();
+      const initialConfig = makeConfig({
+        senses: {
+          "cpu-usage": { group: "system", throttle: null, timeout: null, gracePeriod: null },
+        },
+        reflexes: [],
+        workflows: null,
+      });
+
+      const kernel = createKernel(initialConfig, "/tmp/nerve-test", {
+        workerScript: "fake-worker.js",
+        logStore,
+      });
+
+      // Reload with a workflow reflex added
+      const newConfig: NerveConfig = {
+        senses: {
+          "cpu-usage": { group: "system", throttle: null, timeout: null, gracePeriod: null },
+        },
+        reflexes: [{ kind: "workflow", workflow: "new-workflow", on: ["cpu-usage"] }],
+        workflows: { "new-workflow": { concurrency: 1, overflow: "drop" } },
+      };
+      kernel.reloadConfig(newConfig);
+
+      // Now emit a signal — should trigger the new workflow
+      kernel.bus.emit({ id: 2, senseId: "cpu-usage", payload: "reload-test", ts: Date.now() });
+
+      const startThreadCall = mockChildren
+        .flatMap((c) => (c.send as ReturnType<typeof vi.fn>).mock.calls as [unknown][])
+        .find(
+          ([msg]) =>
+            msg !== null &&
+            typeof msg === "object" &&
+            (msg as Record<string, unknown>).type === "start-thread" &&
+            (msg as Record<string, unknown>).workflow === "new-workflow",
+        );
+
+      expect(startThreadCall).toBeDefined();
+
+      const stopPromise = kernel.stop();
+      await vi.runAllTimersAsync();
+      await stopPromise;
+    });
+
+    it("old workflow reflexes are removed after reloadConfig", async () => {
+      const logStore = makeLogStore();
+      const initialConfig = makeConfig({
+        senses: {
+          "cpu-usage": { group: "system", throttle: null, timeout: null, gracePeriod: null },
+        },
+        reflexes: [{ kind: "workflow", workflow: "old-workflow", on: ["cpu-usage"] }],
+        workflows: { "old-workflow": { concurrency: 1, overflow: "drop" } },
+      });
+
+      const kernel = createKernel(initialConfig, "/tmp/nerve-test", {
+        workerScript: "fake-worker.js",
+        logStore,
+      });
+
+      // Reload with the workflow reflex removed
+      const newConfig: NerveConfig = {
+        senses: {
+          "cpu-usage": { group: "system", throttle: null, timeout: null, gracePeriod: null },
+        },
+        reflexes: [],
+        workflows: null,
+      };
+      kernel.reloadConfig(newConfig);
+
+      // Clear send history
+      for (const c of mockChildren) {
+        (c.send as ReturnType<typeof vi.fn>).mockClear();
+      }
+
+      // Emit a signal — old-workflow should NOT be triggered
+      kernel.bus.emit({ id: 3, senseId: "cpu-usage", payload: "after-reload", ts: Date.now() });
+
+      const startThreadCall = mockChildren
+        .flatMap((c) => (c.send as ReturnType<typeof vi.fn>).mock.calls as [unknown][])
+        .find(
+          ([msg]) =>
+            msg !== null &&
+            typeof msg === "object" &&
+            (msg as Record<string, unknown>).type === "start-thread",
+        );
+
+      expect(startThreadCall).toBeUndefined();
+
+      const stopPromise = kernel.stop();
+      await vi.runAllTimersAsync();
+      await stopPromise;
+    });
+  });
+
+  describe("graceful shutdown stops workflow workers", () => {
+    it("stop() resolves after workflow workers exit", async () => {
+      const logStore = makeLogStore();
+      const config = makeConfig({
+        senses: {
+          "cpu-usage": { group: "system", throttle: null, timeout: null, gracePeriod: null },
+        },
+        reflexes: [{ kind: "workflow", workflow: "shutdown-test", on: ["cpu-usage"] }],
+        workflows: { "shutdown-test": { concurrency: 1, overflow: "drop" } },
+      });
+
+      const kernel = createKernel(config, "/tmp/nerve-test", {
+        workerScript: "fake-worker.js",
+        logStore,
+      });
+
+      // Trigger a workflow so a worker is spawned
+      kernel.bus.emit({ id: 1, senseId: "cpu-usage", payload: null, ts: Date.now() });
+
+      const stopPromise = kernel.stop();
+      await vi.runAllTimersAsync();
+      await expect(stopPromise).resolves.toBeUndefined();
+    });
+
+    it("workflowManager is exposed on kernel", () => {
+      const logStore = makeLogStore();
+      const config = makeConfig({
+        workflows: { "my-wf": { concurrency: 1, overflow: "drop" } },
+      });
+
+      const kernel = createKernel(config, "/tmp/nerve-test", {
+        workerScript: "fake-worker.js",
+        logStore,
+      });
+
+      expect(kernel.workflowManager).toBeDefined();
+      expect(typeof kernel.workflowManager.startWorkflow).toBe("function");
+      expect(typeof kernel.workflowManager.activeCount).toBe("function");
+      expect(typeof kernel.workflowManager.stop).toBe("function");
+
+      kernel.stop().catch(() => {});
+    });
+
+    it("getHealth includes activeWorkflows count", async () => {
+      const logStore = makeLogStore();
+      const config = makeConfig({
+        senses: {
+          "cpu-usage": { group: "system", throttle: null, timeout: null, gracePeriod: null },
+        },
+        reflexes: [{ kind: "workflow", workflow: "health-wf", on: ["cpu-usage"] }],
+        workflows: { "health-wf": { concurrency: 2, overflow: "drop" } },
+      });
+
+      const kernel = createKernel(config, "/tmp/nerve-test", {
+        workerScript: "fake-worker.js",
+        logStore,
+      });
+
+      const health = kernel.getHealth();
+      expect(health).toHaveProperty("activeWorkflows");
+      expect(typeof health.activeWorkflows).toBe("number");
+
+      const stopPromise = kernel.stop();
+      await vi.runAllTimersAsync();
+      await stopPromise;
+    });
+  });
+});

packages/daemon/src/kernel.ts

@@ -31,12 +31,15 @@ import { createReflexScheduler } from "./reflex-scheduler.js";
 import type { ReflexScheduler } from "./reflex-scheduler.js";
 import { createSignalBus } from "./signal-bus.js";
 import type { SignalBus } from "./signal-bus.js";
+import { createWorkflowManager } from "./workflow-manager.js";
+import type { WorkflowManager } from "./workflow-manager.js";
 
 export type KernelHealth = {
   uptime: number;
   activeSenses: number;
   activeGroups: number;
   pendingComputes: number;
+  activeWorkflows: number;
   memoryUsage: NodeJS.MemoryUsage;
 };
 
@@ -46,6 +49,7 @@ export type Kernel = {
   senseCount: number;
   bus: SignalBus;
   logStore: LogStore;
+  workflowManager: WorkflowManager;
   /** Resolves when all workers have sent their initial "ready" message. */
   ready: Promise<void>;
   /** Returns the PID of the worker process for a given group, or null if not found. */
@@ -143,6 +147,8 @@ export function createKernel(
     return _signalIdCounter;
   }
 
+  const workflowManager = createWorkflowManager(nerveRoot, config, logStore);
+
   const groups = new Set<string>();
   for (const senseConfig of Object.values(config.senses)) {
     groups.add(senseConfig.group);
@@ -267,7 +273,12 @@ export function createKernel(
     sendCompute(entry.process, senseName);
   }
 
-  scheduler = createReflexScheduler(config, bus, triggerFn, { logStore });
+  scheduler = createReflexScheduler(config, bus, triggerFn, {
+    logStore,
+    workflowTriggerFn: (workflowName, payload) => {
+      workflowManager.startWorkflow(workflowName, payload);
+    },
+  });
 
   if (groups.size === 0) {
     readyResolve?.();
@@ -350,7 +361,13 @@ export function createKernel(
     // Note: pending/throttled computes in the old scheduler are silently dropped here.
     // In-flight state is not preserved across reloadConfig.
     scheduler.stop();
-    scheduler = createReflexScheduler(config, bus, triggerFn, { logStore });
+    scheduler = createReflexScheduler(config, bus, triggerFn, {
+      logStore,
+      workflowTriggerFn: (workflowName, payload) => {
+        workflowManager.startWorkflow(workflowName, payload);
+      },
+    });
+    workflowManager.updateConfig(newConfig);
     const newGroups = collectGroups(newConfig);
     removeStaleGroups(oldGroups, newGroups);
     addNewGroups(oldGroups, newGroups);
@@ -378,6 +395,7 @@ export function createKernel(
       activeSenses: Object.keys(config.senses).length,
       activeGroups: workers.size,
       pendingComputes: 0,
+      activeWorkflows: workflowManager.totalActiveCount(),
       memoryUsage: process.memoryUsage(),
     };
   }
@@ -441,6 +459,7 @@ export function createKernel(
       fileWatcher = null;
     }
     scheduler.stop();
+    await workflowManager.stop();
     const exitPromises: Promise<void>[] = [];
     for (const entry of workers.values()) {
       sendShutdown(entry.process);
@@ -469,6 +488,7 @@ export function createKernel(
     senseCount,
     bus,
     logStore,
+    workflowManager,
     ready,
     getWorkerPid,
     triggerCompute: triggerFn,

packages/daemon/src/reflex-scheduler.ts

@@ -16,6 +16,9 @@ import type { SignalBus, Unsubscribe } from "./signal-bus.js";
 /** Sends a compute message to the worker responsible for the given sense. */
 export type TriggerFn = (senseName: string) => void;
 
+/** Triggers a workflow run in response to a signal. */
+export type WorkflowTriggerFn = (workflowName: string, payload: unknown) => void;
+
 /** Per-sense mutable state tracked by the scheduler. */
 type SenseState = {
   lastComputeAt: number;
@@ -37,6 +40,7 @@ function makeSenseState(): SenseState {
 
 export type ReflexSchedulerOptions = {
   logStore?: LogStore;
+  workflowTriggerFn?: WorkflowTriggerFn;
 };
 
 /**
@@ -153,6 +157,21 @@ export function createReflexScheduler(
   }
 
   for (const reflex of config.reflexes) {
+    if (reflex.kind === "workflow") {
+      if (opts?.workflowTriggerFn !== undefined && reflex.on !== null && reflex.on.length > 0) {
+        const workflowTriggerFn = opts.workflowTriggerFn;
+        const workflowName = reflex.workflow;
+        const watchedSenses = new Set(reflex.on);
+        const unsub = bus.subscribe((signal) => {
+          if (watchedSenses.has(signal.senseId)) {
+            workflowTriggerFn(workflowName, signal.payload);
+          }
+        });
+        unsubscribers.push(unsub);
+      }
+      continue;
+    }
+
     if (reflex.kind !== "sense") continue;
     const senseReflex = reflex;
     const senseName = senseReflex.sense;

packages/daemon/src/sense-runtime.ts

@@ -1,5 +1,5 @@
-import { readFileSync, readdirSync } from "node:fs";
-import { join } from "node:path";
+import { mkdirSync, readFileSync, readdirSync } from "node:fs";
+import { dirname, join } from "node:path";
 
 import Database from "better-sqlite3";
 import { drizzle } from "drizzle-orm/better-sqlite3";
@@ -128,6 +128,7 @@ export function openSenseDb(
   let sqlite: Database.Database;
 
   try {
+    mkdirSync(dirname(dbPath), { recursive: true });
     sqlite = new Database(dbPath);
     // WAL mode for better concurrent read performance
     sqlite.pragma("journal_mode = WAL");

packages/daemon/src/workflow-manager.ts

@@ -24,6 +24,10 @@ export type WorkflowManager = {
   activeCount: (workflowName: string) => number;
   /** Number of pending queued threads waiting to run for a workflow. */
   queueLength: (workflowName: string) => number;
+  /** Total active workflow threads across all workflows. */
+  totalActiveCount: () => number;
+  /** Update the config reference (e.g. after hot reload). Active workers are unaffected. */
+  updateConfig: (newConfig: NerveConfig) => void;
   /** Gracefully shut down all workflow workers. */
   stop: () => Promise<void>;
 };
@@ -97,7 +101,7 @@ function waitForExit(child: ChildProcess, timeoutMs: number): Promise<void> {
 
 export function createWorkflowManager(
   nerveRoot: string,
-  config: NerveConfig,
+  initialConfig: NerveConfig,
   logStore: LogStore,
 ): WorkflowManager {
   const workerScript = resolveWorkerScript();
@@ -105,6 +109,7 @@ export function createWorkflowManager(
   const states = new Map<string, WorkflowState>();
   const workers = new Map<string, WorkerEntry>();
   let stopped = false;
+  let config = initialConfig;
 
   function getOrCreateState(workflowName: string): WorkflowState {
     let state = states.get(workflowName);
@@ -348,6 +353,18 @@ export function createWorkflowManager(
     return states.get(workflowName)?.queue.length ?? 0;
   }
 
+  function totalActiveCount(): number {
+    let total = 0;
+    for (const state of states.values()) {
+      total += state.active.size;
+    }
+    return total;
+  }
+
+  function updateConfig(newConfig: NerveConfig): void {
+    config = newConfig;
+  }
+
   async function stop(): Promise<void> {
     stopped = true;
     const exitPromises: Promise<void>[] = [];
@@ -359,5 +376,5 @@ export function createWorkflowManager(
     workers.clear();
   }
 
-  return { startWorkflow, activeCount, queueLength, stop };
+  return { startWorkflow, activeCount, queueLength, totalActiveCount, updateConfig, stop };
 }