HybridizeProtocol.cc File Reference

#include <core/init/score_function_corrections.hh>
#include <protocols/hybridization/HybridizeProtocolCreator.hh>
#include <protocols/hybridization/HybridizeProtocol.hh>
#include <protocols/hybridization/FoldTreeHybridize.hh>
#include <protocols/hybridization/CartesianHybridize.hh>
#include <protocols/hybridization/TemplateHistory.hh>
#include <protocols/hybridization/util.hh>
#include <protocols/hybridization/DomainAssembly.hh>
#include <protocols/hybridization/DDomainParse.hh>
#include <protocols/hybridization/TMalign.hh>
#include <protocols/moves/MoverContainer.hh>
#include <protocols/moves/MonteCarlo.hh>
#include <protocols/simple_moves/ConstraintSetMover.hh>
#include <protocols/simple_moves/SwitchResidueTypeSetMover.hh>
#include <protocols/simple_moves/FragmentMover.hh>
#include <protocols/simple_moves/symmetry/SetupForSymmetryMover.hh>
#include <protocols/simple_moves/MinMover.hh>
#include <protocols/rosetta_scripts/util.hh>
#include <core/pose/selection.hh>
#include <protocols/relax/FastRelax.hh>
#include <protocols/relax/util.hh>
#include <protocols/loops/util.hh>
#include <protocols/loops/loops_main.hh>
#include <protocols/electron_density/SetupForDensityScoringMover.hh>
#include <protocols/moves/DsspMover.hh>
#include <core/fragment/picking_old/vall/util.hh>
#include <core/scoring/constraints/CoordinateConstraint.hh>
#include <core/scoring/func/HarmonicFunc.hh>
#include <core/scoring/constraints/ConstraintSet.hh>
#include <core/io/silent/SilentStructFactory.hh>
#include <core/io/silent/SilentStruct.hh>
#include <core/pose/Pose.hh>
#include <core/pose/util.hh>
#include <core/pose/PDBInfo.hh>
#include <core/import_pose/import_pose.hh>
#include <core/chemical/ChemicalManager.hh>
#include <core/chemical/ResidueType.hh>
#include <core/chemical/ResidueTypeSet.hh>
#include <core/fragment/IndependentBBTorsionSRFD.hh>
#include <core/fragment/FragSet.hh>
#include <core/fragment/FrameIterator.hh>
#include <core/fragment/FragmentIO.hh>
#include <core/fragment/ConstantLengthFragSet.hh>
#include <core/fragment/Frame.hh>
#include <core/fragment/FragData.hh>
#include <core/fragment/util.hh>
#include <core/sequence/util.hh>
#include <core/conformation/ResidueFactory.hh>
#include <core/conformation/Residue.hh>
#include <core/kinematics/FoldTree.hh>
#include <core/kinematics/MoveMap.hh>
#include <core/scoring/dssp/Dssp.hh>
#include <core/scoring/constraints/util.hh>
#include <core/scoring/constraints/Constraint.hh>
#include <core/scoring/constraints/ConstraintIO.hh>
#include <core/scoring/methods/EnergyMethodOptions.hh>
#include <core/scoring/hbonds/HBondOptions.hh>
#include <core/optimization/MinimizerOptions.hh>
#include <core/optimization/CartesianMinimizer.hh>
#include <core/scoring/ScoreFunctionFactory.hh>
#include <core/pose/datacache/CacheableDataType.hh>
#include <basic/datacache/BasicDataCache.hh>
#include <core/pack/task/TaskFactory.hh>
#include <core/pack/task/PackerTask.hh>
#include <core/pack/task/operation/NoRepackDisulfides.hh>
#include <core/pack/task/operation/OperateOnCertainResidues.hh>
#include <core/pack/task/operation/ResFilters.hh>
#include <core/pack/task/operation/ResLvlTaskOperations.hh>
#include <core/pack/task/operation/TaskOperation.hh>
#include <core/pack/task/operation/TaskOperations.hh>
#include <basic/datacache/DataMap.hh>
#include <core/pose/symmetry/util.hh>
#include <core/optimization/symmetry/SymAtomTreeMinimizer.hh>
#include <protocols/simple_moves/symmetry/SymPackRotamersMover.hh>
#include <core/conformation/symmetry/SymmetricConformation.hh>
#include <core/conformation/symmetry/SymmetryInfo.hh>
#include <utility/excn/Exceptions.hh>
#include <utility/io/izstream.hh>
#include <utility/tag/Tag.hh>
#include <utility/string_util.hh>
#include <basic/Tracer.hh>
#include <numeric/random/WeightedSampler.hh>
#include <ObjexxFCL/format.hh>
#include <boost/foreach.hpp>
#include <core/scoring/rms_util.hh>
#include <protocols/comparative_modeling/coord_util.hh>
#include <basic/options/option.hh>
#include <basic/options/keys/symmetry.OptionKeys.gen.hh>
#include <basic/options/keys/edensity.OptionKeys.gen.hh>
#include <basic/options/keys/cm.OptionKeys.gen.hh>
#include <basic/options/keys/in.OptionKeys.gen.hh>
#include <basic/options/keys/score.OptionKeys.gen.hh>
#include <basic/options/keys/relax.OptionKeys.gen.hh>
#include <basic/options/keys/corrections.OptionKeys.gen.hh>
#include <basic/options/keys/jumps.OptionKeys.gen.hh>
#include <basic/options/keys/evaluation.OptionKeys.gen.hh>
#include <basic/options/keys/mistakes.OptionKeys.gen.hh>
#include <protocols/docking/DockingLowRes.hh>
#include <protocols/symmetric_docking/SymDockingLowRes.hh>
#include <protocols/simple_moves/symmetry/SymMinMover.hh>

Namespaces
	protocols
	The instance of Loops contained by AbrelaxApplication should be replaced by a LoopsOP.
	protocols::hybridization

Functions
static thread_local basic::Tracer	TR ("protocols.hybridization.HybridizeProtocol")

Detailed Description

Author

Yifan Song

Function Documentation

static thread_local basic::Tracer TR ( "protocols.hybridization.HybridizeProtocol"  )

static