The Long Island Rail Road will excavate nearly 5,000 tons of contaminated soil at seven substations in Queens and Nassau County.
The system was getting back to its regular service for the afternoon rush, spokesman Sal Arena said Friday afternoon.
Service was suspended for about two hours Tuesday morning between Huntington and Hicksville after the LIRR said an unauthorized person was struck by a train.
Gov. Andrew Cuomo declared a state of emergency for Long Island, along with New York City and the mid-Hudson Valley.
The LIRR said customers should expect canceled trains and delays during the evening rush hour.
Both commuter rail lines carried 83.4 million riders last year. The stronger economy and more people back to work were credited with the increases.
Long Island Rail Road commuters faced a rough start to the work week after a train became disabled in one of the four East River tunnels, prompting heavy delays and cancellations.
At long last, a “near-normal” commute was expected Wednesday, in the wake of a derailment that damaged tracks and switches.
Railroad officials in Connecticut said the morning commute went as well as can be expected following Friday’s train collision that injured 72 people and has shut down service.
Modified service resumed Thursday morning after trains out of Penn Station were cancelled Wednesday night.
After more than 800 Long Islanders were surveyed, 49 percent said they thought the Long Island Rail Road was doing a good or excellent job.