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Purge shell_tools functions (quantumlib#5566)
Remove obsolete functions `shell_tools.run_cmd` and `shell_tools.run_shell`; as they are now replaced by `shell_tools.run`. Remove related classes and auxiliary functions `CommandOutput`, `TeeCapture`, `_async_forward`, `_async_wait_for_process`. This completes and closes quantumlib#4394
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