Fixing unit tests that were affected by the MAX_RESIDUE_TYPE limit.
Nine core unit tests and one protocols unit test have actually been "silently" failing due to the new max residue types limit.
The patches.txt file has recently been edited to cut down on the number of ResidueTypes created and a limit of 3000 ResidueTypes has been set on the size of the ResidueTypeSet (limit is controllable from the options system). Only the fa_standard/patches.txt was edited however. Tests that call the -restore_pre_talaris_2013_behavior flag don't observe the changes to fa_standard/patches.txt were affected by the limit on the ResidueTypeSet. They hit the limit and then utility_exit. For some reason, they not register as failing.
Unit test status: [All Pass except for DdgFilter on linux gcc]
Integration test status: [No test changes expected]