New Jersey Transit reports that Midtown Direct trains on the Montclair-Boonton line have been restored as of 7:35 a.m. They had been canceled due to flooding.

The Princeton shuttle, the Dinky, isn't running but there are replacement buses currently running.

The LIRR was advising customers to expect up to 30 minute delays Monday morning due to flooding near one of the East River Tunnels at Hunterspoint Ave. in Queens, but after working through the night crews successfully pumped the water out of an East River tunnel before the start of the morning commute. Those delays are no longer in effect.

The LIRR reports that it was pumping 2,000 gallons of water a minute from the flooded, Hunterspoint Ave. site and were worried that due to heavy rains, ground saturation and higher than normal tides that their would be delays during the morning commute.

The storm has left parts of New York and New Jersey at a standstill, and the LIRR in conjunction with the FDNY, the NYC Transit Authority and the MTA Bridges & Tunnels and Amtrak are currently working to drain flooded areas.