Promote AgentCompany-New to the repository root and retire the old app

The legacy application - its src, tests, landing site, promo assets, docs,
release tooling, CI workflows, and root configs - leaves the tree; it stays
reachable in history. Everything under AgentCompany-New moves up unchanged:
same package name, so the production userData/database path is untouched,
and e2e/build scripts already resolved paths relative to the project. The
developer cred.txt stays gitignored at its new location. Full verify:ci
passes from the new root.

tests/integration/thread-participant-wake.test.ts

@@ -0,0 +1,63 @@
+import { randomUUID } from "node:crypto";
+import { tmpdir } from "node:os";
+import { join } from "node:path";
+import { describe, expect, test } from "vitest";
+import { DatabaseConnection } from "../../src/main/database/connection";
+import { OrganizationService } from "../../src/main/services/organization-service";
+import { ChatService } from "../../src/main/services/chat-service";
+import { dispatchAgentTool, type AgentToolContext } from "../../src/main/services/agent-tools";
+
+function call(name: string, args: Record<string, unknown>) {
+  return { id: `call_${randomUUID()}`, name, arguments: args };
+}
+
+describe("thread participant wake", () => {
+  test("human reply in a thread wakes agent participants without explicit @mention", () => {
+    const connection = new DatabaseConnection(join(tmpdir(), `ac-threadwake-${randomUUID()}.db`));
+    const organization = new OrganizationService(connection.db);
+    let orgId = "";
+    let ceoId = "";
+    let employeeId = "";
+    let providerId = "";
+    connection.transaction(() => {
+      orgId = organization.createOrganization({ organizationName: "WakeCorp", employeeName: "Yang", mission: "m", goal: "g" });
+      providerId = (connection.db.prepare("select id from providers where org_id = ? and provider_key = 'openai'").get(orgId) as { id: string }).id;
+      connection.db.prepare("update providers set enabled = 1 where id = ?").run(providerId);
+      ceoId = organization.createAgent({
+        orgId, name: "CEO", role: "CEO", department: "Executive",
+        modelProviderId: providerId, modelId: "gpt-5.4", budgetCents: 25000, managerAgentId: null,
+      });
+      employeeId = (connection.db.prepare("select id from employees where org_id = ?").get(orgId) as { id: string }).id;
+    });
+
+    const chat = new ChatService(connection.db);
+    const deps = { db: connection.db, organization, chat };
+    const ctx: AgentToolContext = {
+      orgId, agent: { id: ceoId, modelProviderId: providerId, modelId: "gpt-5.4" },
+      taskProjectId: null, taskGoalId: null, workspace: null,
+    };
+
+    const firstResult = dispatchAgentTool(deps, ctx, call("send_message", { channel: "general", body: "The plan is ready for review." }));
+    const threadId = /thread_id="([^"]+)"/.exec(firstResult)?.[1];
+    expect(threadId).toBeTruthy();
+
+    const runsBeforeReply = connection.db.prepare("select count(*) as c from task_runs where org_id = ? and trigger = 'chat_mention'")
+      .get(orgId) as { c: number };
+
+    connection.transaction(() => {
+      chat.sendMessage({
+        orgId,
+        spaceId: (connection.db.prepare("select id from chat_spaces where org_id = ? and name = 'general'").get(orgId) as { id: string }).id,
+        threadId: threadId!,
+        senderType: "employee",
+        senderId: employeeId,
+        bodyMd: "Looks good, please proceed with the deployment.",
+        attachmentFileIds: [],
+      });
+    });
+
+    const runsAfterReply = connection.db.prepare("select count(*) as c from task_runs where org_id = ? and trigger = 'chat_mention'")
+      .get(orgId) as { c: number };
+    expect(runsAfterReply.c).toBeGreaterThan(runsBeforeReply.c);
+  });
+});