Migration from Docker to Standalone Python Server (#73)

* Migration from docker to standalone server
Migration handling
Fixed tests
Use simpler in-memory storage
Support for concurrent logging to disk
Simplified direct connections to localhost

* Migration from docker / redis to standalone script
Updated tests
Updated run script
Fixed requirements
Use dotenv
Ask if user would like to install MCP in Claude Desktop once
Updated docs

* More cleanup and references to docker removed

* Cleanup

* Comments

* Fixed tests

* Fix GitHub Actions workflow for standalone Python architecture

- Install requirements-dev.txt for pytest and testing dependencies
- Remove Docker setup from simulation tests (now standalone)
- Simplify linting job to use requirements-dev.txt
- Update simulation tests to run directly without Docker

Fixes unit test failures in CI due to missing pytest dependency.

🤖 Generated with [Claude Code](https://claude.ai/code)

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

* Remove simulation tests from GitHub Actions

- Removed simulation-tests job that makes real API calls
- Keep only unit tests (mocked, no API costs) and linting
- Simulation tests should be run manually with real API keys
- Reduces CI costs and complexity

GitHub Actions now only runs:
- Unit tests (569 tests, all mocked)
- Code quality checks (ruff, black)

🤖 Generated with [Claude Code](https://claude.ai/code)

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

* Fixed tests

* Fixed tests

---------

Co-authored-by: Claude <noreply@anthropic.com>

tests/test_large_prompt_handling.py

@@ -246,9 +246,9 @@ class TestLargePromptHandling:
 
         assert len(result) == 1
         output = json.loads(result[0].text)
-        # The precommit tool may return success or clarification_required depending on git state
+        # The precommit tool may return success or files_required_to_continue depending on git state
         # The core fix ensures large prompts are detected at the right time
-        assert output["status"] in ["success", "clarification_required", "resend_prompt"]
+        assert output["status"] in ["success", "files_required_to_continue", "resend_prompt"]
 
     @pytest.mark.asyncio
     async def test_debug_large_error_description(self, large_prompt):
@@ -298,17 +298,26 @@ class TestLargePromptHandling:
             )
             mock_get_provider.return_value = mock_provider
 
-            # Mock the centralized file preparation method to avoid file system access
-            with patch.object(tool, "_prepare_file_content_for_prompt") as mock_prepare_files:
-                mock_prepare_files.return_value = ("File content", [other_file])
+            # Mock handle_prompt_file to verify prompt.txt is handled
+            with patch.object(tool, "handle_prompt_file") as mock_handle_prompt:
+                # Return the prompt content and updated files list (without prompt.txt)
+                mock_handle_prompt.return_value = ("Large prompt content from file", [other_file])
 
-                await tool.execute({"prompt": "", "files": [temp_prompt_file, other_file]})
+                # Mock the centralized file preparation method
+                with patch.object(tool, "_prepare_file_content_for_prompt") as mock_prepare_files:
+                    mock_prepare_files.return_value = ("File content", [other_file])
 
-                # Verify prompt.txt was removed from files list
-                mock_prepare_files.assert_called_once()
-                files_arg = mock_prepare_files.call_args[0][0]
-                assert len(files_arg) == 1
-                assert files_arg[0] == other_file
+                    # Use a small prompt to avoid triggering size limit
+                    await tool.execute({"prompt": "Test prompt", "files": [temp_prompt_file, other_file]})
+
+                    # Verify handle_prompt_file was called with the original files list
+                    mock_handle_prompt.assert_called_once_with([temp_prompt_file, other_file])
+
+                    # Verify _prepare_file_content_for_prompt was called with the updated files list (without prompt.txt)
+                    mock_prepare_files.assert_called_once()
+                    files_arg = mock_prepare_files.call_args[0][0]
+                    assert len(files_arg) == 1
+                    assert files_arg[0] == other_file
 
         temp_dir = os.path.dirname(temp_prompt_file)
         shutil.rmtree(temp_dir)