The F.B.I. affidavit said reporters for the news outlet, which it also did not name, had approached the N.S.A. with questions for their story and, in the course of that dialogue, provided a copy of the document in their possession. An analysis of the file showed it was a scan of a copy that had been creased or folded, the affidavit said, “suggesting they had been printed and hand-carried out of a secured space.”