Fix optimise-store.cc to skip more paths on macOS

I hate to make this such a large check but the lack of documentation means we really have no idea what's allowed. All of them reported so far have been within ".app/Contents" directories. That appears to be a safe starting point. However, I would not be surprised to also find more paths that are disallowed for instance in .framework or .bundle directories.

Fixes #2031
Fixes #2229

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