Replace check/tool scripts with a direct tool invocation as feasible

[pavoljuhas]

Description of the issue

Some of the check/SomeTool scripts such as check/mypy or check/pylint effectively run the tool with a custom configuration file. They can be eliminated if we move tool settings to pyproject.toml and just use standard tool execution instead. This will also make it easier to run SomeTool on a specific file or with extra options as there would be no need to figure if the check/ scripts passes extra options or not.

Cirq version

1.5.0.dev at 9e21622