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WIP: Update from-source in-place upgrade documentation

Loic Nageleisen requested to merge lloeki/omnibus-gitlab:patch-1 into master

This fixes two points when moving from a source install in place:

  • depending on how the user created the repositories folder, permissions may be wrong, and Chef will complain.
  • uploads were not moved, so the omnibus install will have lots of missing files, from avatars to attachments.
Edited by 🤖 GitLab Bot 🤖

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