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This switches to a secure FS implementation in most places, except for where we can not make changes at this moment because it would break behavior. Not handled in this commit: - Allowing the root for `manifestgen` packages to be configured. - Allowing the user to define a working root while building locally. - Defaulting to the secure FS implementation in `kustomization.MakeDefaultOptions`. Problem here is that constructing the secure FS could result in an error, which we can not surface without signature changes to the constructor func. Signed-off-by: Hidde Beydals <hello@hidde.co>
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