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ci: Also set bootstrap for MSYS shell in non-deps builds

Nirbheek Chauhan requested to merge nirbheek/cerbero:fix-MR-triggered-pipelines into main

This was missed in 96dc5ea4 and breaks all pipelines triggered by gstreamer merge requests, such as:

https://gitlab.freedesktop.org/nirbheek/gstreamer/-/pipelines/527877

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