Refactor: Clean up obsolete files and organize codebase structure

This commit removes deprecated modules and reorganizes code into logical directories:

Deleted files (superseded by newer systems):
- claude_code_server.py (replaced by agent-sdk direct integration)
- heartbeat.py (superseded by scheduled_tasks.py)
- pulse_brain.py (unused in production)
- config/pulse_brain_config.py (obsolete config)

Created directory structure:
- examples/ (7 example files: example_*.py, demo_*.py)
- tests/ (5 test files: test_*.py)

Updated imports:
- agent.py: Removed heartbeat module and all enable_heartbeat logic
- bot_runner.py: Removed heartbeat parameter from Agent initialization
- llm_interface.py: Updated deprecated claude_code_server message

Preserved essential files:
- hooks.py (for future use)
- adapters/skill_integration.py (for future use)
- All Google integration tools (Gmail, Calendar, Contacts)
- GLM provider code (backward compatibility)

Co-Authored-By: Claude Sonnet 4.5 <noreply@anthropic.com>

examples/example_bot_with_pulse_brain.py

@@ -0,0 +1,160 @@
+"""
+Example: Bot with Pulse & Brain monitoring.
+
+The most cost-effective approach:
+- Pulse checks run constantly (pure Python, $0 cost)
+- Brain only invokes Agent when needed
+- 92% cost savings vs always-on agent
+
+Usage:
+    python example_bot_with_pulse_brain.py
+"""
+
+import asyncio
+
+from adapters.base import AdapterConfig
+from adapters.runtime import AdapterRuntime
+from adapters.slack.adapter import SlackAdapter
+from adapters.telegram.adapter import TelegramAdapter
+from agent import Agent
+from pulse_brain import PulseBrain
+
+# Cost estimation constants
+_AVERAGE_TOKENS_PER_CALL = 1000
+_COST_PER_TOKEN = 0.000003
+
+
+async def main() -> None:
+    print("=" * 60)
+    print("Ajarbot with Pulse & Brain")
+    print("=" * 60)
+    print("\nPulse: Pure Python checks (zero cost)")
+    print("Brain: Agent/SDK (only when needed)\n")
+
+    # 1. Create agent
+    agent = Agent(
+        provider="claude",
+        workspace_dir="./memory_workspace",
+        enable_heartbeat=False,
+    )
+
+    # 2. Create runtime with adapters
+    runtime = AdapterRuntime(agent)
+
+    slack_adapter = SlackAdapter(AdapterConfig(
+        platform="slack",
+        enabled=True,
+        credentials={
+            "bot_token": "xoxb-YOUR-TOKEN",
+            "app_token": "xapp-YOUR-TOKEN",
+        },
+    ))
+    runtime.add_adapter(slack_adapter)
+
+    telegram_adapter = TelegramAdapter(AdapterConfig(
+        platform="telegram",
+        enabled=True,
+        credentials={"bot_token": "YOUR-TELEGRAM-TOKEN"},
+    ))
+    runtime.add_adapter(telegram_adapter)
+
+    # 3. Create Pulse & Brain system
+    pb = PulseBrain(agent, pulse_interval=60)
+
+    pb.add_adapter("slack", slack_adapter)
+    pb.add_adapter("telegram", telegram_adapter)
+
+    # Optional: Apply custom configuration
+    try:
+        from config.pulse_brain_config import apply_custom_config
+        apply_custom_config(pb)
+        print("[Setup] Custom pulse/brain config loaded")
+    except ImportError:
+        print("[Setup] Using default pulse/brain config")
+
+    # 4. Show configuration
+    print("\n" + "=" * 60)
+    print("Configuration")
+    print("=" * 60)
+
+    print(f"\nPulse checks ({len(pb.pulse_checks)}):")
+    for check in pb.pulse_checks:
+        print(
+            f"  [Pulse] {check.name} "
+            f"(every {check.interval_seconds}s)"
+        )
+
+    print(f"\nBrain tasks ({len(pb.brain_tasks)}):")
+    for task in pb.brain_tasks:
+        if task.check_type.value == "scheduled":
+            print(
+                f"  [Brain] {task.name} "
+                f"(scheduled {task.schedule_time})"
+            )
+        else:
+            print(f"  [Brain] {task.name} (conditional)")
+
+    # 5. Start everything
+    print("\n" + "=" * 60)
+    print("Starting system...")
+    print("=" * 60 + "\n")
+
+    await runtime.start()
+    pb.start()
+
+    print("\n" + "=" * 60)
+    print("System is running!")
+    print("=" * 60)
+    print("\nWhat's happening:")
+    print("  - Users can chat with bot on Slack/Telegram")
+    print("  - Pulse checks run every 60s (zero cost)")
+    print("  - Brain only invokes when:")
+    print("    - Error detected")
+    print("    - Threshold exceeded")
+    print("    - Scheduled time (8am, 6pm)")
+    print("\nPress Ctrl+C to stop.\n")
+
+    try:
+        iteration = 0
+        while True:
+            await asyncio.sleep(30)
+            iteration += 1
+
+            if iteration % 2 == 0:
+                status = pb.get_status()
+                invocations = status["brain_invocations"]
+                print(
+                    f"[Status] Brain invoked "
+                    f"{invocations} times"
+                )
+
+    except KeyboardInterrupt:
+        print("\n\n[Shutdown] Stopping system...")
+    finally:
+        pb.stop()
+        await runtime.stop()
+
+        final_status = pb.get_status()
+        invocations = final_status["brain_invocations"]
+        total_tokens = invocations * _AVERAGE_TOKENS_PER_CALL
+        estimated_cost = total_tokens * _COST_PER_TOKEN
+
+        print("\n" + "=" * 60)
+        print("Final Statistics")
+        print("=" * 60)
+        print(f"Brain invocations: {invocations}")
+        print(f"Estimated tokens: {total_tokens:,}")
+        print(f"Estimated cost: ${estimated_cost:.4f}")
+        print("\nCompare to always-on agent:")
+        print("  Pulse checks: FREE")
+        print(
+            f"  Brain calls: {invocations} "
+            f"(only when needed)"
+        )
+        print(
+            "  Savings: ~92% vs running agent every minute"
+        )
+
+
+if __name__ == "__main__":
+    asyncio.run(main())