snapcraft does not detect need to re-clean part after permission bits change on file
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Issue body
If I have a part like this:
```
local-scripts:
plugin: dump
source: .
```
and there is a file in there, say script.sh, and initially that file is not executable, snapcraft primes it. If I then change the permission bits (and the permission bits only, nothing else in the snapcraft part tree, snapcraft does not re-prime it, and I must `snapcraft clean local-scripts` first.
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