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Clean submodules before updating them

Ethan Reesor requested to merge ethan.reesor/contrib/gitlab-runner:feature/clean-submodules into master

What does this MR do?

Fixes #2852 (closed) by adding a command to writeSubmoduleUpdateCmd to clean submodules.

Why was this MR needed?

See #2852 (closed)

Are there points in the code the reviewer needs to double check?

No?

Does this MR meet the acceptance criteria?

  • Documentation created/updated
  • Tests
    • Added for this feature/bug
    • All builds are passing
  • Branch has no merge conflicts with master (if you do - rebase it please)

What are the relevant issue numbers?

Fixes #2852 (closed) Fixes #2999 (closed)

Edited by Alessio Caiazza

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