Researchers in the Department of Civil and Environmental Engineering at the Pennsylvania State University released their Glacier Bay project page, which an be found at
The modeling was done using ADCIRC.
The project page is a good source of information on the oceanographic processes operating in Glacier Bay. It also incorporates coastal freshwater discharges through use of continuously variable non-zero normal flux boundary conditions.
The project pages contain extensive documentation on how to use ADCIRC and associated pre- and post-processing tools. The modeling project was done with an eye towards open source methods.