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Replace scripts with a single top level CLI to work better with Claude permissions #2

@alxmrs

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@alxmrs

In the video demo recorded without using --dangerously-skip-permissions, analysis is slowed down by the user having to whitelist permissions for multiple scripts related to the skill. Instead, if there was a top level CLI with subcommands to dispatch every action, I bet the user could get away with approving only one permission to unlock all analysis.

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