karellen / karellen-lsp-mcp / 23657411883

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Add lsp_regenerate_index tool and raise staleness threshold to 5% (#14)

## Summary

- **New `lsp_regenerate_index` MCP tool**: cleans all managed data
(compilation databases, workspace caches) and force-restarts the LSP
server for a registered project. Returns the (potentially new)
project_id.
- **Staleness threshold raised to 5%**: `compile_commands.json`
staleness detection now requires >= 5% of source files to be missing
before triggering automatic regeneration. A single deleted or renamed
file no longer causes unnecessary index rebuilds.
- Adds `LspAdapter.clean_managed_data()` and `managed_dir_name` class
attribute to the adapter framework.

## Test plan

- [x] New unit test: below-5% missing files is not stale
- [x] New unit test: at-5% missing files triggers staleness
- [x] Existing relative path resolution test updated for new threshold
- [x] Full `pyb -vX` build passes (unit tests, integration tests,
flake8, coverage)

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15 of 33 new or added lines in 3 files covered. (45.45%)

2219 of 2861 relevant lines covered (77.56%)

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