The duplications reported are not properly attributed to the files where they were actually found.

Why? The pylint similarities checker computes the duplications at the end of the process, hence they are not associated with the actual files. This issue is solved by outputting the details as a part of the message in the following format:

completely_unrelated_module.py:1: [R0801] Similar lines in 2 files
==myapp.package.module:366
==myapp.package2.module2:262
    def do_something(self):
        if self.exists():
            continue
        else:
            raise Exception()

Message detail: http://www.logilab.org/card/pylintfeatures#id2