Merge pull request #4073 from RosettaCommons/roccomoretti/PDB_loading_adjustments
A few fixes related to PDB diagnostic test
There were a few aramid-patching issues when loading PDB with the CCD.
Also change how the C-term heuristic for polymeric CCD component loading works. There's nowhere close to a consensus on how the OXT hydrogen is named in different residues. We should just avoid special casing them altogether.
Also make it such that a patching failure doesn't necessary bring down the whole run. (Though we should still get a "failure" in PDB_diagnostic test if we hit an issue.)