Merge pull request #2901 from RosettaCommons/vmullig/override_pseudobonds
Adding option to skip detection of pseudobonds.
Needed for certain peptide workflows. Note that this does not alter any default behaviour of Rosetta: pseudobond auto-detection is still on by default. It just lets us turn it off in the very unusual cases in which we have strange input files, for which the automatic pseudobond detection creates problems. (It's an "expert setting" in that sense, intended to be used only by those who know what they're doing in very rare cases.)
Tasks:
- [x] Add the option.
- [x] Have it do something.
- [x] Documentation.
- [x] Beauty.
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