Merge pull request #838 from RosettaCommons/vmullig/fix_integration_tests
Fixing mistake in HbondsToResidueFilter that was causing two integration tests to fail.
I was cloning the scorefunction even if the owning pointer were NULL. Fixed now.
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Merge pull request #791 from RosettaCommons/everyday847/residue_pair_deriv
Integration test changes are only present in circumstances where minimization uses the new method, as might be anticipated. In general, minimization seems more effective, if anything.
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Merge pull request #826 from RosettaCommons/PyRosetta
Updating PyRosetta dependency calculation algorithm. Adding detection and deletion of stray dir in build directory's.
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Merge pull request #830 from RosettaCommons/revert-829-vmullig/clang_fix_master
Revert "Fix library levels and Mac clang builds"
Reverts RosettaCommons/main#829
Blargh -- I was too quick on the merge.
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Merge pull request #829 from RosettaCommons/vmullig/clang_fix_master
Fix library levels and Mac clang builds
@davidekim: Please use the test server next time. Your merge messed up the library dependencies.
Restoring by moving cyclize_peptide() and fixH() functions from protocols/forge/methods/util.cc to protocols/relax/util.cc. In the process, I'm rewriting fixH() to use the proper functions in core for rebuilding polymer bond-dependent atoms (rather than manually placing the atom named "H" at a hardcoded position).
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