fix: apply isort formatting to fix CI linting

Applied isort to properly sort all imports according to PEP8:
- Standard library imports first
- Third-party imports second
- Local imports last
- Alphabetical ordering within each group

All tests still passing after import reordering.

gemini_server.py

@@ -4,8 +4,9 @@ This file exists to maintain compatibility with existing configurations.
 The main implementation is now in server.py
 """
 
-from server import main
 import asyncio
 
+from server import main
+
 if __name__ == "__main__":
     asyncio.run(main())

prompts/__init__.py

@@ -2,12 +2,8 @@
 System prompts for Gemini tools
 """
 
-from .tool_prompts import (
-    THINK_DEEPER_PROMPT,
-    REVIEW_CODE_PROMPT,
-    DEBUG_ISSUE_PROMPT,
-    ANALYZE_PROMPT,
-)
+from .tool_prompts import (ANALYZE_PROMPT, DEBUG_ISSUE_PROMPT,
+                           REVIEW_CODE_PROMPT, THINK_DEEPER_PROMPT)
 
 __all__ = [
     "THINK_DEEPER_PROMPT",

server.py

@@ -2,27 +2,22 @@
 Gemini MCP Server - Main server implementation
 """
 
-import os
-import sys
 import asyncio
 import logging
+import os
+import sys
 from datetime import datetime
-from typing import List, Dict, Any
+from typing import Any, Dict, List
 
 import google.generativeai as genai
 from mcp.server import Server
+from mcp.server.models import InitializationOptions
 from mcp.server.stdio import stdio_server
 from mcp.types import TextContent, Tool
-from mcp.server.models import InitializationOptions
 
-from config import (
-    __version__,
-    __updated__,
-    __author__,
-    DEFAULT_MODEL,
-    MAX_CONTEXT_TOKENS,
-)
-from tools import ThinkDeeperTool, ReviewCodeTool, DebugIssueTool, AnalyzeTool
+from config import (DEFAULT_MODEL, MAX_CONTEXT_TOKENS, __author__, __updated__,
+                    __version__)
+from tools import AnalyzeTool, DebugIssueTool, ReviewCodeTool, ThinkDeeperTool
 
 # Configure logging
 logging.basicConfig(level=logging.INFO)
@@ -147,8 +142,8 @@ async def handle_call_tool(
 
 async def handle_chat(arguments: Dict[str, Any]) -> List[TextContent]:
     """Handle general chat requests"""
-    from utils import read_files
     from config import TEMPERATURE_BALANCED
+    from utils import read_files
 
     prompt = arguments.get("prompt", "")
     context_files = arguments.get("context_files", [])

setup.py

@@ -2,9 +2,10 @@
 Setup configuration for Gemini MCP Server
 """
 
-from setuptools import setup
 from pathlib import Path
 
+from setuptools import setup
+
 # Read README for long description
 readme_path = Path(__file__).parent / "README.md"
 long_description = ""

tests/conftest.py

@@ -2,8 +2,8 @@
 Pytest configuration for Gemini MCP Server tests
 """
 
-import sys
 import os
+import sys
 from pathlib import Path
 
 # Ensure the parent directory is in the Python path for imports

tests/test_config.py

@@ -2,17 +2,9 @@
 Tests for configuration
 """
 
-from config import (
-    __version__,
-    __updated__,
-    __author__,
-    DEFAULT_MODEL,
-    MAX_CONTEXT_TOKENS,
-    TEMPERATURE_ANALYTICAL,
-    TEMPERATURE_BALANCED,
-    TEMPERATURE_CREATIVE,
-    TOOL_TRIGGERS,
-)
+from config import (DEFAULT_MODEL, MAX_CONTEXT_TOKENS, TEMPERATURE_ANALYTICAL,
+                    TEMPERATURE_BALANCED, TEMPERATURE_CREATIVE, TOOL_TRIGGERS,
+                    __author__, __updated__, __version__)
 
 
 class TestConfig:

tests/test_server.py

@@ -2,11 +2,12 @@
 Tests for the main server functionality
 """
 
-import pytest
 import json
 from unittest.mock import Mock, patch
 
-from server import handle_list_tools, handle_call_tool
+import pytest
+
+from server import handle_call_tool, handle_list_tools
 
 
 class TestServerTools:

tests/test_tools.py

@@ -2,10 +2,11 @@
 Tests for individual tool implementations
 """
 
-import pytest
 from unittest.mock import Mock, patch
 
-from tools import ThinkDeeperTool, ReviewCodeTool, DebugIssueTool, AnalyzeTool
+import pytest
+
+from tools import AnalyzeTool, DebugIssueTool, ReviewCodeTool, ThinkDeeperTool
 
 
 class TestThinkDeeperTool:

tests/test_utils.py

@@ -2,12 +2,8 @@
 Tests for utility functions
 """
 
-from utils import (
-    read_file_content,
-    read_files,
-    estimate_tokens,
-    check_token_limit,
-)
+from utils import (check_token_limit, estimate_tokens, read_file_content,
+                   read_files)
 
 
 class TestFileUtils:

tools/__init__.py

@@ -2,10 +2,10 @@
 Tool implementations for Gemini MCP Server
 """
 
-from .think_deeper import ThinkDeeperTool
-from .review_code import ReviewCodeTool
-from .debug_issue import DebugIssueTool
 from .analyze import AnalyzeTool
+from .debug_issue import DebugIssueTool
+from .review_code import ReviewCodeTool
+from .think_deeper import ThinkDeeperTool
 
 __all__ = [
     "ThinkDeeperTool",

tools/analyze.py

@@ -2,12 +2,15 @@
 Analyze tool - General-purpose code and file analysis
 """
 
-from typing import Dict, Any, List, Optional
+from typing import Any, Dict, List, Optional
+
 from pydantic import Field
-from .base import BaseTool, ToolRequest
+
+from config import MAX_CONTEXT_TOKENS, TEMPERATURE_ANALYTICAL
 from prompts import ANALYZE_PROMPT
-from utils import read_files, check_token_limit
-from config import TEMPERATURE_ANALYTICAL, MAX_CONTEXT_TOKENS
+from utils import check_token_limit, read_files
+
+from .base import BaseTool, ToolRequest
 
 
 class AnalyzeRequest(ToolRequest):

tools/base.py

@@ -3,10 +3,11 @@ Base class for all Gemini MCP tools
 """
 
 from abc import ABC, abstractmethod
-from typing import Dict, Any, List, Optional
-from pydantic import BaseModel, Field
+from typing import Any, Dict, List, Optional
+
 import google.generativeai as genai
 from mcp.types import TextContent
+from pydantic import BaseModel, Field
 
 
 class ToolRequest(BaseModel):

tools/debug_issue.py

@@ -2,12 +2,15 @@
 Debug Issue tool - Root cause analysis and debugging assistance
 """
 
-from typing import Dict, Any, List, Optional
+from typing import Any, Dict, List, Optional
+
 from pydantic import Field
-from .base import BaseTool, ToolRequest
+
+from config import MAX_CONTEXT_TOKENS, TEMPERATURE_ANALYTICAL
 from prompts import DEBUG_ISSUE_PROMPT
-from utils import read_files, check_token_limit
-from config import TEMPERATURE_ANALYTICAL, MAX_CONTEXT_TOKENS
+from utils import check_token_limit, read_files
+
+from .base import BaseTool, ToolRequest
 
 
 class DebugIssueRequest(ToolRequest):

tools/review_code.py

@@ -2,12 +2,15 @@
 Code Review tool - Comprehensive code analysis and review
 """
 
-from typing import Dict, Any, List, Optional
+from typing import Any, Dict, List, Optional
+
 from pydantic import Field
-from .base import BaseTool, ToolRequest
+
+from config import MAX_CONTEXT_TOKENS, TEMPERATURE_ANALYTICAL
 from prompts import REVIEW_CODE_PROMPT
-from utils import read_files, check_token_limit
-from config import TEMPERATURE_ANALYTICAL, MAX_CONTEXT_TOKENS
+from utils import check_token_limit, read_files
+
+from .base import BaseTool, ToolRequest
 
 
 class ReviewCodeRequest(ToolRequest):

tools/think_deeper.py

@@ -2,12 +2,15 @@
 Think Deeper tool - Extended reasoning and problem-solving
 """
 
-from typing import Dict, Any, List, Optional
+from typing import Any, Dict, List, Optional
+
 from pydantic import Field
-from .base import BaseTool, ToolRequest
+
+from config import MAX_CONTEXT_TOKENS, TEMPERATURE_CREATIVE
 from prompts import THINK_DEEPER_PROMPT
-from utils import read_files, check_token_limit
-from config import TEMPERATURE_CREATIVE, MAX_CONTEXT_TOKENS
+from utils import check_token_limit, read_files
+
+from .base import BaseTool, ToolRequest
 
 
 class ThinkDeeperRequest(ToolRequest):

utils/__init__.py

@@ -2,8 +2,8 @@
 Utility functions for Gemini MCP Server
 """
 
-from .file_utils import read_files, read_file_content
-from .token_utils import estimate_tokens, check_token_limit
+from .file_utils import read_file_content, read_files
+from .token_utils import check_token_limit, estimate_tokens
 
 __all__ = [
     "read_files",

utils/file_utils.py

@@ -3,7 +3,7 @@ File reading utilities
 """
 
 from pathlib import Path
-from typing import List, Tuple, Optional
+from typing import List, Optional, Tuple
 
 
 def read_file_content(file_path: str) -> str:

utils/token_utils.py

@@ -3,6 +3,7 @@ Token counting utilities
 """
 
 from typing import Tuple
+
 from config import MAX_CONTEXT_TOKENS