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feat: add support for manifest file (#3091)
* feat: add support for functions manifest file * chore: add tests * chore: update docs * refactor: update skip flag and user messages * chore: update README * chore: update test * chore: add test Co-authored-by: kodiakhq[bot] <49736102+kodiakhq[bot]@users.noreply.github.com>
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