feat(mcp-server/filesystem): add exclude pattern support across all filesystem tools

[cto-new]

Scope

• Enforce exclude patterns from project config across MCP filesystem tools, including file-read, file-write, file-replace-content, file-insert-content, and file-delete-content.
• Ensure directory listing and file search already respected excludes remain unchanged.

Implementation details

• Introduced and wired ExcludeRegistryInterface into all filesystem handlers and added early exclusion checks.
• Refactored file-write tool to use a dedicated FileWriteHandler and added FileWriteResult.
• Added exclusion checks to FileRead, FileReplaceContent, FileInsertContent, and FileDeleteContent handlers.
• Standardized error messaging: Path '{path}' is excluded by project configuration.

Testing

• Added unit tests covering exclusion behavior across all filesystem tools (read, write, replace, insert, delete).
• Added MCP Inspector integration tests to verify excludes across tools (FilesystemExcludesTest).
• All tests pass, code style and static analysis checks completed.

Notes

• No breaking changes; existing behavior preserved with enhanced security and consistency.

[codecov]

Codecov Report

❌ Patch coverage is 18.10345% with 190 lines in your changes missing coverage. Please review.

Files with missing lines	Patch %	Lines
.../Filesystem/DirectoryList/DirectoryListHandler.php	0.00%	114 Missing ⚠️
...s/Filesystem/DirectoryList/DirectoryListResult.php	0.00%	39 Missing ⚠️
...on/Tools/Filesystem/FileWrite/FileWriteHandler.php	56.66%	13 Missing ⚠️
...s/Filesystem/DirectoryList/DirectoryListAction.php	0.00%	12 Missing ⚠️
...ion/Tools/Filesystem/FileWrite/FileWriteAction.php	0.00%	12 Missing ⚠️

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