Jesse Gross 685a53534b manifest: Don't prune layers if we can't open a manifest file
If there is an error when opening a manifest file (corrupted, permission denied, etc.)
then the referenced layers will not be included in the list of active
layers. This causes them to be deleted when pruning happens at startup
or a model is pulled.

In such a situation, we should prefer to preserve data in the hopes that
it can be recovered rather than being agressive about deletion.
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