Milestone 2

Problem1:

If you used SQL similar to the one given for Milestone1, you should be able to run ProteinLoader.java directly.

Note: you may still need to change/fill in the connection settings of your postgres server and table/column names.

Problem 2:

The Milestone2.java contains code to retrieve protein from database, compute smithwaterman alignment, chaining, and insert match and localalignment score back to the t_match, t_localalignment table.

You also need SmithWaterman.java, Postgres.java, SimpleChaining.java.

Note: you may still need to change/fill in the connection settings of your postgres server and table/column names.