RemodelGlobalFrame.cc File Reference

Loop modeling protocol based on routines from Remodel and EpiGraft packages in Rosetta++. More...

#include <protocols/forge/remodel/RemodelGlobalFrame.hh>
#include <protocols/forge/remodel/RemodelRotamerLinks.hh>
#include <protocols/forge/methods/util.hh>
#include <basic/Tracer.hh>
#include <basic/MetricValue.hh>
#include <core/conformation/Residue.hh>
#include <core/scoring/disulfides/DisulfideMatchingPotential.hh>
#include <core/util/disulfide_util.hh>
#include <core/conformation/util.hh>
#include <core/pose/PDBInfo.hh>
#include <core/pose/symmetry/util.hh>
#include <core/pose/Remarks.hh>
#include <core/pose/util.hh>
#include <core/id/AtomID.hh>
#include <core/scoring/ScoreFunction.hh>
#include <core/kinematics/MoveMap.hh>
#include <core/pose/metrics/CalculatorFactory.hh>
#include <core/pack/pack_rotamers.hh>
#include <core/pack/rotamer_set/RotamerLinks.hh>
#include <core/chemical/ChemicalManager.hh>
#include <core/chemical/ResidueTypeSet.hh>
#include <core/io/pdb/file_data.hh>
#include <basic/options/option.hh>
#include <basic/options/keys/remodel.OptionKeys.gen.hh>
#include <core/pack/task/TaskFactory.hh>
#include <protocols/toolbox/pose_metric_calculators/NeighborhoodByDistanceCalculator.hh>
#include <core/pack/task/ResfileReader.hh>
#include <core/scoring/constraints/ConstraintSet.hh>
#include <protocols/simple_moves/symmetry/SetupForSymmetryMover.hh>
#include <protocols/constraints_additional/BindingSiteConstraint.hh>
#include <protocols/constraints_additional/COMCoordinateConstraint.hh>
#include <numeric/random/random.hh>
#include <numeric/xyzVector.hh>
#include <numeric/xyzMatrix.hh>
#include <utility/vector0.hh>
#include <utility/vector1.hh>
#include <Eigen/Dense>
#include <iostream>
#include <math.h>

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

Functions
static thread_local basic::Tracer	protocols::forge::remodel::TR ("protocols.forge.remodel.RemodelGlobalFrame")
numeric::xyzVector< core::Real >	protocols::forge::remodel::compute_center_of_mass (core::pose::Pose const &pose, core::Size range_start, core::Size range_stop)
Matrix3f	protocols::forge::remodel::rot_mat (MatrixXf &A, MatrixXf &B)
MatrixXf	protocols::forge::remodel::ideal_COMs (double rise, double radius, double omega, int unitn)
double	protocols::forge::remodel::get_RMSD (MatrixXf &A, MatrixXf &B)

Detailed Description

Loop modeling protocol based on routines from Remodel and EpiGraft packages in Rosetta++.

Author

Yih-En Andrew Ban (yab@u.nosp@m..was.nosp@m.hingt.nosp@m.on.e.nosp@m.du)

Possu Huang (possu.nosp@m.@u.w.nosp@m.ashin.nosp@m.gton.nosp@m..edu)