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Handle removed source projects in MR CI commits

Yorick Peterse requested to merge fix-merge-requests-without-source-projects into master

Fixes #3599 (closed)

@dzaporozhets assigning this to you since you wrote the original code. Perhaps checking for the source project isn't the right way, but I'm not sure if there's a better way (e.g. somewhere earlier in the process) that we can detect this.

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