They reported on the claims that were made. Once again, newspapers are not oracles. Facts change from day to day and stories develop over time.
There's a reason that the Times puts out a new edition every day, instead of releasing just a singe one 2000 years ago that we all worship as indisputable truth.
"Fake news" is reporting that Barack Obama, Black Lives Matter, and Anonymous are planning riots in 37 city centers at 7 pm on July 15 2016, as Breitbart, the Daily Caller, and other far-right news sources reported two days before. The story was entirely made up, and most of the text was copied from a chain email from the 00s.