The victim told ABC11 he was jogging when a person came out of the woods and confronted him with a gun.
It happened near Otis Street.
Police closed off a portion of the trail for about an hour as they investigated. The mugging is the latest in a string of incidents reported along the trail in Durham.
At the beginning of this year, several improvements were made in an effort to better keep the community safe. Security cameras were installed, maintenance was done on site, and signage was also put up.
The victim in Friday's attack - although he was shaken up - is doing okay.