MinimizeBackbone.cc File Reference

implementation of resfile reader and its command classes More...

#include <protocols/ligand_docking/MinimizeBackbone.hh>
#include <protocols/ligand_docking/MinimizeBackboneCreator.hh>
#include <protocols/ligand_docking/InterfaceBuilder.hh>
#include <protocols/ligand_docking/ligand_options/Interface.hh>
#include <protocols/loops/Loop.hh>
#include <core/conformation/Residue.hh>
#include <core/scoring/constraints/CoordinateConstraint.hh>
#include <core/scoring/func/HarmonicFunc.hh>
#include <core/pose/Pose.hh>
#include <core/chemical/VariantType.hh>
#include <core/kinematics/AtomTree.hh>
#include <core/kinematics/FoldTree.hh>
#include <core/kinematics/Edge.hh>
#include <numeric/random/random.hh>
#include <utility/exit.hh>
#include <basic/Tracer.hh>
#include <core/types.hh>
#include <utility/tag/Tag.hh>
#include <basic/datacache/DataMap.hh>
#include <algorithm>
#include <core/pose/util.hh>
#include <protocols/ligand_docking/LigandArea.hh>
#include <utility/vector0.hh>
#include <utility/vector1.hh>
#include <core/kinematics/tree/Atom.hh>
#include <utility/excn/Exceptions.hh>
#include <boost/foreach.hpp>

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

Functions
static thread_local basic::Tracer	protocols::ligand_docking::minimize_backbone_tracer ("protocols.ligand_docking.ligand_options.MinimizeBackbone", basic::t_debug)
void	protocols::ligand_docking::reorder_with_first_non_mobile_as_root (core::kinematics::FoldTreeOP f, ligand_options::Interface const &interface, core::pose::Pose &pose)
core::Size	protocols::ligand_docking::find_peptide_attach_pt (int const &start, int const &stop, std::map< core::Size, core::Size > const jump_to_attach)
core::Size	protocols::ligand_docking::find_attach_pt (core::Size const jump_id, ligand_options::Interface const interface, core::pose::Pose const &pose)
void	protocols::ligand_docking::restrict_to_protein_residues (ligand_options::Interface &interface, core::pose::Pose const &pose)

Detailed Description

implementation of resfile reader and its command classes

Author

Gordon Lemmon (glemm.nosp@m.on@g.nosp@m.mail..nosp@m.com), adapted from the ResfileReader code by Steven Lewis (smlew.nosp@m.i@un.nosp@m.c.edu) and Andrew Leaver-Fay