Authorities said a man was found under a train at 15th and Market streets just before 6 a.m.
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The Philadelphia Fire Department responded.
Police said the man was homeless and had gotten into a fight with another man prior to entering the tracks on his own. He was pronounced dead at the scene.
SEPTA brought in buses for commuters running between 2nd and 30th streets.
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"MFL: Shuttle bus service is in effect between 30th Street to 5th Street Station due to tresspasser under a train at 15th Street Station. Expect significant delays at this time," SEPTA tweeted.
The Market-Frankford Line resumed normal routing and operations around 8 a.m.