Change std::io::FilePermission to a typesafe representation

This patch changes `std::io::FilePermissions` from an exposed `u32`
representation to a typesafe representation (that only allows valid
flag combinations) using the `std::bitflags`, thus ensuring a greater
degree of safety on the Rust side.

Despite the change to the type, most code should continue to work
as-is, sincde the new type provides bit operations in the style of C
flags. To get at the underlying integer representation, use the `bits`
method; to (unsafely) convert to `FilePermissions`, use
`FilePermissions::from_bits`.

Closes #6085.

[breaking-change]