atom.rs

mod atom {

    pub struct Atom {
        priv id: int,
    }

    impl TotalEq for Atom {
        fn equals(&self, other: &Atom) -> bool {
            self.id == other.id
        }
    }

    impl Eq for Atom {
        fn eq(&self, other: &Atom) -> bool {
            self.id == other.id
        }
        fn ne(&self, other: &Atom) -> bool {
            self.id != other.id
        }
    }

}

crate.rs

#[link(name = "atom", vers = "0.0")]
#[comment = "Atom crate"]
#[crate_type = "lib"]
#[warn(missing_doc)]
#[warn(non_camel_case_types)]
#[warn(non_uppercase_statics)]
#[warn(unnecessary_qualification)]
pub mod atom;

Shell Results

$ rustc --lib src/atom/crate.rs
src/anthill/atom.rs:3:4: 5:5 warning: missing documentation for a struct
src/anthill/atom.rs:3     pub struct Atom {
src/anthill/atom.rs:4         priv id: int,
src/anthill/atom.rs:5     }
src/anthill/crate.rs:4:7: 4:18 note: lint level defined here
src/anthill/crate.rs:4 #[warn(missing_doc)]
                              ^~~~~~~~~~~
warning: missing crate link meta `name`, using `crate` as default
warning: missing crate link meta `vers`, using `0.0` as default

So: the crate file is being read, but the link meta data isn't?

The problem was missing ";" after the attributes. The error messages could be clearer...