TopologyBroker.cc File Reference

top-class (Organizer) of the TopologyBroker mechanism More...

#include <protocols/topology_broker/TopologyBroker.hh>
#include <protocols/topology_broker/Exceptions.hh>
#include <protocols/topology_broker/ClaimerMessage.hh>
#include <protocols/topology_broker/TopologyClaimer.hh>
#include <protocols/topology_broker/SymmetryClaimer.hh>
#include <protocols/topology_broker/SequenceNumberResolver.hh>
#include <protocols/topology_broker/claims/DofClaim.hh>
#include <protocols/topology_broker/claims/LegacyRootClaim.hh>
#include <protocols/topology_broker/claims/CutClaim.hh>
#include <protocols/topology_broker/claims/SequenceClaim.hh>
#include <protocols/topology_broker/claims/JumpClaim.hh>
#include <protocols/topology_broker/claims/BBClaim.hh>
#include <protocols/topology_broker/claims/SymmetryClaim.hh>
#include <core/pose/Pose.hh>
#include <protocols/jd2/util.hh>
#include <core/conformation/Conformation.hh>
#include <core/pack/task/PackerTask.hh>
#include <core/pack/task/TaskFactory.hh>
#include <protocols/simple_moves/PackRotamersMover.hh>
#include <protocols/simple_moves/symmetry/SymPackRotamersMover.hh>
#include <core/io/raw_data/DisulfideFile.hh>
#include <core/scoring/ScoreFunction.hh>
#include <core/scoring/ScoreFunctionFactory.hh>
#include <core/scoring/constraints/ConstraintSet.hh>
#include <core/kinematics/Exceptions.hh>
#include <core/kinematics/FoldTree.hh>
#include <core/kinematics/MoveMap.hh>
#include <core/kinematics/ShortestPathInFoldTree.hh>
#include <core/optimization/AtomTreeMinimizer.hh>
#include <core/optimization/MinimizerOptions.hh>
#include <core/scoring/dssp/Dssp.hh>
#include <basic/options/option.hh>
#include <basic/options/keys/in.OptionKeys.gen.hh>
#include <basic/options/keys/abinitio.OptionKeys.gen.hh>
#include <basic/options/keys/run.OptionKeys.gen.hh>
#include <core/chemical/ChemicalManager.fwd.hh>
#include <core/chemical/VariantType.hh>
#include <core/id/SequenceMapping.hh>
#include <core/pose/util.hh>
#include <core/conformation/Residue.hh>
#include <core/pose/annotated_sequence.hh>
#include <protocols/moves/MoverContainer.hh>
#include <core/util/SwitchResidueTypeSet.hh>
#include <core/pose/symmetry/util.hh>
#include <core/optimization/symmetry/SymAtomTreeMinimizer.hh>
#include <ObjexxFCL/FArray1D.hh>
#include <ObjexxFCL/FArray2D.hh>
#include <numeric/xyzTriple.hh>
#include <basic/Tracer.hh>
#include <sstream>
#include <vector>
#include <stdexcept>
#include <utility>
#include <utility/vector0.hh>
#include <utility/vector1.hh>

Namespaces
	ObjexxFCL
	Application level code for relax-type protocols.
	protocols
	The instance of Loops contained by AbrelaxApplication should be replaced by a LoopsOP.
	protocols::topology_broker

Functions
static thread_local basic::Tracer	tr ("protocols.topo_broker", basic::t_info)
bool	protocols::topology_broker::compare_sequence_claim_priority (claims::SequenceClaimOP const &a, claims::SequenceClaimOP const &b)

Detailed Description

top-class (Organizer) of the TopologyBroker mechanism

Detailed: responsibilities:

maintains list of ToplogyClaimers maintains DofClaims – exclusive or non-exclusively markedup dofs like BackboneClaim, IntraResClaim, JumpClaim generates FoldTree, MoveMap, and collects samplers provided by TopologyClaimers

Author

Oliver Lange

Function Documentation

static thread_local basic::Tracer tr ( "protocols.topo_broker"  , basic::t_info    )

static

Referenced by protocols::topology_broker::TopologyBroker::add_chainbreak_variants(), protocols::topology_broker::TopologyBroker::add_constraints(), protocols::topology_broker::TopologyBroker::apply(), protocols::topology_broker::TopologyBroker::apply_filter(), protocols::topology_broker::TopologyBroker::broking(), protocols::topology_broker::TopologyBroker::build_fold_tree(), protocols::topology_broker::TopologyBroker::build_fold_tree_from_claimer(), protocols::topology_broker::TopologyBroker::check_chainbreak_variants(), protocols::topology_broker::TopologyBroker::generate_final_claims(), protocols::topology_broker::TopologyBroker::generate_round1(), protocols::topology_broker::TopologyBroker::generate_sequence_claims(), protocols::topology_broker::TopologyBroker::initialize_cuts(), protocols::topology_broker::TopologyBroker::initialize_dofs(), protocols::topology_broker::TopologyBroker::initialize_sequence(), protocols::topology_broker::TopologyBroker::mover(), protocols::topology_broker::TopologyBroker::resolve_symmetry_claims(), and protocols::topology_broker::TopologyBroker::switch_to_fullatom().