Merge pull request #1352 from RosettaCommons/JWLabonte/sugars/docking
This merge improves a private pilot app I used for glycan docking. It also includes the following fixes/changes:
more sugar patches and .params
2-deoxy-
another rhamnose
more H-placement fixes
adding output to notify a user if input rings are not chemically believable
fixes rotamer sets for substituted sugars
(I had planned to add ->6-beta-D-Manp, but it looks to be already in the database....)
All tests pass.
Integration test changes expect because of .params file/patch changes and/or new output.