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Make run command run as root

Jonatan Hatakeyama Zeidler requested to merge run-root into dev

This MR

  • removes the unused sudo argument from Container.run_command()
  • makes the run command run a bash by default
  • makes the run command run as root user to avoid being unable to inspect certain things due to missing permissions
  • clarifies the usage of the run command in the docs
Edited by Jonatan Hatakeyama Zeidler

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