Programs are often shut down when superseded by new or better tools. In any case, both the WaPo and the Guardian article on the same leak says metadata collection is ongoing:

A senior administration official queried by the Washington Post denied that the Obama administration was "using this program" to "collect internet metadata in bulk", but added: "I'm not going to say we're not collecting any internet metadata."

http://www.guardian.co.uk/world/2013/jun/27/nsa-data-mining-...