#include <basic/basic.hh>
#include <basic/options/after_opts.hh>
#include <basic/options/keys/backrub.OptionKeys.gen.hh>
#include <basic/options/keys/bbg.OptionKeys.gen.hh>
#include <basic/options/keys/cluster.OptionKeys.gen.hh>
#include <basic/options/keys/cyclic.OptionKeys.gen.hh>
#include <basic/options/keys/in.OptionKeys.gen.hh>
#include <basic/options/keys/mc.OptionKeys.gen.hh>
#include <basic/options/keys/out.OptionKeys.gen.hh>
#include <basic/options/option.hh>
#include <basic/options/option_macros.hh>
#include <basic/prof.hh>
#include <basic/Tracer.hh>
#include <core/chemical/AtomType.hh>
#include <core/chemical/ChemicalManager.hh>
#include <core/chemical/ResidueTypeSet.hh>
#include <core/chemical/util.hh>
#include <core/chemical/VariantType.hh>
#include <core/conformation/Residue.hh>
#include <core/conformation/ResidueFactory.hh>
#include <core/id/DOF_ID.hh>
#include <core/import_pose/import_pose.hh>
#include <devel/init.hh>
#include <core/io/silent/ScoreFileSilentStruct.hh>
#include <core/io/silent/SilentFileData.hh>
#include <core/kinematics/MoveMap.hh>
#include <core/pack/task/operation/TaskOperations.hh>
#include <core/pack/task/TaskFactory.hh>
#include <core/pose/annotated_sequence.hh>
#include <core/pose/Pose.hh>
#include <core/pose/util.hh>
#include <core/scoring/constraints/AtomPairConstraint.hh>
#include <core/scoring/constraints/ConstraintSet.hh>
#include <core/scoring/Energies.hh>
#include <core/scoring/rms_util.hh>
#include <core/scoring/ScoreFunction.hh>
#include <core/scoring/ScoreFunctionFactory.hh>
#include <core/scoring/ScoringManager.hh>
#include <numeric/random/random.hh>
#include <numeric/xyz.functions.hh>
#include <numeric/xyz.io.hh>
#include <ObjexxFCL/format.hh>
#include <ObjexxFCL/string.functions.hh>
#include <ObjexxFCL/FArray2D.hh>
#include <protocols/jd2/JobDistributor.hh>
#include <protocols/jd2/MPIFileBufJobDistributor.hh>
#include <protocols/jd2/NoOutputJobOutputter.hh>
#include <protocols/backrub/BackrubMover.hh>
#include <protocols/simple_moves/BBGaussianMover.hh>
#include <protocols/canonical_sampling/CanonicalSamplingMover.fwd.hh>
#include <protocols/canonical_sampling/CanonicalSamplingMover.hh>
#include <protocols/moves/mc_convergence_checks/MPIBPool_ConvergenceCheck.hh>
#include <protocols/moves/mc_convergence_checks/MPIHPool_ConvergenceCheck.hh>
#include <protocols/moves/mc_convergence_checks/MPIPool_ConvergenceCheck.hh>
#include <protocols/moves/mc_convergence_checks/Pool_ConvergenceCheck.hh>
#include <protocols/minimization_packing/MinMover.hh>
#include <protocols/moves/MonteCarlo.hh>
#include <protocols/moves/Mover.hh>
#include <protocols/moves/RepeatMover.hh>
#include <protocols/simple_moves/sidechain_moves/SidechainMCMover.hh>
#include <protocols/simple_moves/sidechain_moves/SidechainMover.hh>
#include <protocols/moves/TrialMover.hh>
#include <protocols/toolbox/SwitchResidueTypeSet.hh>
#include <sstream>
#include <utility/io/izstream.hh>
#include <utility/io/ozstream.hh>
#include <time.h>

Functions
Pose	cyclic_perm (Pose const &orig, Size start)

Real	cyclic_all_atom_rms (Pose const &pose, Pose const &other)

Real	cyclic_ca_rms (Pose const &pose, Pose const &other)

void	cyclic_superimpose (Pose &move, Pose const &ref)

int	main (int argc, char *argv[])

Variables
static basic::Tracer	TR ("cycgly_superimpose")

Function Documentation

◆ cyclic_all_atom_rms()

Real cyclic_all_atom_rms	(	Pose const &	pose,
		Pose const &	other
	)

References cyclic_perm(), create_a3b_hbs::i, beta_nonlocal::pose, and create_a3b_hbs::r.

Referenced by main().

◆ cyclic_ca_rms()

Real cyclic_ca_rms	(	Pose const &	pose,
		Pose const &	other
	)

References cyclic_perm(), create_a3b_hbs::i, beta_nonlocal::pose, and create_a3b_hbs::r.

◆ cyclic_perm()

Pose cyclic_perm	(	Pose const &	orig,
		Size	start
	)

References create_a3b_hbs::i, beta_nonlocal::pose, and basic::options::OptionKeys::cutoutdomain::start.

Referenced by cyclic_all_atom_rms(), cyclic_ca_rms(), and cyclic_superimpose().

◆ cyclic_superimpose()

void cyclic_superimpose	(	Pose &	move,
		Pose const &	ref
	)

References cyclic_perm(), create_a3b_hbs::i, basic::options::OptionKeys::stepwise::move, and create_a3b_hbs::r.

Referenced by main().

◆ main()

int main	(	int	argc,
		char *	argv[]
	)

References utility::argmin(), argv, basic::options::OptionKeys::constraints::constraints, cyclic_all_atom_rms(), cyclic_superimpose(), test.T009_Exceptions::e, run_backbone::float, create_a3b_hbs::i, basic::init(), create_a3b_hbs::j, ObjexxFCL::lead_zero_string_of(), basic::options::option, beta_nonlocal::pose, pyrosetta.io::poses_from_files(), register_options(), in::file::s(), subloop_histogram::size, basic::options::TR, and x.

Variable Documentation

◆ TR

basic::Tracer TR("cycgly_superimpose") ( "cycgly_superimpose" )

static

Functions

Variables