Splice.cc File Reference

#include <protocols/jd2/JobDistributor.hh>
#include <protocols/jd2/InnerJob.hh>
#include <protocols/jd2/Job.hh>
#include <protocols/splice/Splice.hh>
#include <protocols/splice/SpliceSegment.hh>
#include <protocols/splice/TailSegmentMover.hh>
#include <core/pack/task/operation/NoRepackDisulfides.hh>
#include <protocols/task_operations/PreventChainFromRepackingOperation.hh>
#include <protocols/splice/SpliceCreator.hh>
#include <utility/string_util.hh>
#include <utility/exit.hh>
#include <core/kinematics/FoldTree.hh>
#include <protocols/loops/Loop.hh>
#include <protocols/loops/Loops.hh>
#include <core/scoring/ScoreFunction.hh>
#include <core/chemical/AA.hh>
#include <protocols/protein_interface_design/filters/TorsionFilter.hh>
#include <protocols/protein_interface_design/util.hh>
#include <boost/algorithm/string/predicate.hpp>
#include <protocols/task_operations/RestrictChainToRepackingOperation.hh>
#include <core/pose/PDBInfo.hh>
#include <core/id/SequenceMapping.hh>
#include <core/pose/ResidueIndexDescription.hh>
#include <core/pose/Pose.hh>
#include <core/pose/ref_pose.hh>
#include <core/pose/extra_pose_info_util.hh>
#include <core/import_pose/import_pose.hh>
#include <core/conformation/Conformation.hh>
#include <core/pack/task/TaskFactory.hh>
#include <basic/Tracer.hh>
#include <core/pack/task/operation/TaskOperations.hh>
#include <utility/tag/Tag.hh>
#include <utility/vector1.hh>
#include <basic/datacache/DataMap.hh>
#include <basic/datacache/DataMapObj.hh>
#include <protocols/minimization_packing/RotamerTrialsMinMover.hh>
#include <protocols/moves/Mover.hh>
#include <protocols/rosetta_scripts/util.hh>
#include <core/pose/selection.hh>
#include <protocols/protein_interface_design/movers/AddChainBreak.hh>
#include <utility/io/izstream.hh>
#include <sstream>
#include <algorithm>
#include <string>
#include <boost/algorithm/string.hpp>
#include <core/conformation/Residue.hh>
#include <core/chemical/VariantType.hh>
#include <core/kinematics/MoveMap.hh>
#include <protocols/task_operations/DesignAroundOperation.hh>
#include <protocols/task_operations/ThreadSequenceOperation.hh>
#include <protocols/loops/loop_mover/refine/LoopMover_CCD.hh>
#include <numeric/xyzVector.hh>
#include <core/pack/task/operation/TaskOperations.fwd.hh>
#include <protocols/protein_interface_design/movers/LoopLengthChange.hh>
#include <core/scoring/dssp/Dssp.hh>
#include <numeric/random/random.hh>
#include <numeric/random/random_permutation.hh>
#include <protocols/minimization_packing/PackRotamersMover.hh>
#include <core/scoring/constraints/ConstraintSet.hh>
#include <core/scoring/constraints/SequenceProfileConstraint.hh>
#include <core/scoring/func/Func.fwd.hh>
#include <core/scoring/func/CircularHarmonicFunc.hh>
#include <numeric/constants.hh>
#include <core/scoring/constraints/DihedralConstraint.hh>
#include <core/scoring/constraints/CoordinateConstraint.hh>
#include <core/scoring/func/HarmonicFunc.hh>
#include <core/scoring/constraints/Constraint.hh>
#include <core/sequence/SequenceProfile.hh>
#include <numeric/xyz.functions.hh>
#include <protocols/simple_moves/CutChainMover.hh>
#include <basic/options/option.hh>
#include <basic/options/keys/out.OptionKeys.gen.hh>
#include <basic/options/keys/OptionKeys.hh>
#include <fstream>
#include <ctime>
#include <protocols/splice/RBInMover.hh>
#include <protocols/splice/RBOutMover.hh>
#include <protocols/toolbox/superimpose.hh>
#include <protocols/splice/SpliceManager.hh>
#include <protocols/splice/util.hh>
#include <utility/tag/XMLSchemaGeneration.hh>
#include <protocols/moves/mover_schemas.hh>
#include <core/pack/task/PackerTask.hh>
#include <core/pack/task/ResidueLevelTask.hh>
#include <utility/stream_util.hh>

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

Functions
static basic::Tracer	protocols::splice::TR ("protocols.splice.Splice")
static basic::Tracer	protocols::splice::TR_ccd ("protocols.splice.Splice_ccd")
static basic::Tracer	protocols::splice::TR_constraints ("protocols.splice.Splice_constraints")
static basic::Tracer	protocols::splice::TR_pssm ("protocols.splice.Splice_pssm")
static basic::Tracer	protocols::splice::TR_min ("protocols.splice.Splice_min")
std::string	protocols::splice::complex_type_name_for_subsubtag (std::string const &foo)
std::string	protocols::splice::complex_type_name_for_subtag (std::string const &foo)

Detailed Description

Author

Sarel Fleishman (sarel.nosp@m.@wei.nosp@m.zmann.nosp@m..ac..nosp@m.il)