#include <protocols/kinmatch/FunGroupTK.hh>
#include <basic/Tracer.hh>
#include <core/chemical/ChemicalManager.hh>
#include <core/chemical/ResidueTypeSet.hh>
#include <core/conformation/Residue.hh>
#include <core/conformation/ResidueFactory.hh>
#include <core/kinematics/Stub.hh>
#include <core/pose/Pose.hh>
#include <core/pose/util.hh>
#include <numeric/constants.hh>
#include <numeric/xyz.functions.hh>
#include <ObjexxFCL/format.hh>
#include <ObjexxFCL/string.functions.hh>
#include <protocols/scoring/ImplicitFastClashCheck.hh>
#include <sstream>
#include <utility/vector1.hh>
#include <core/conformation/Conformation.hh>
#include <core/kinematics/AtomTree.hh>

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

	protocols::kinmatch

Macros
#define	CYS_CB_HG_DIS 2.911171

#define	CYS_SG_CB_H 0.7494478

#define	CYS_HG_SG_PRJLEN 2.088496

#define	CYS_1oSIN_CB_SG_HG 1.092026

#define	CYS_HG_SG_X_DROP 0.0998

#define	CYS_CB_SG_PERP 1.646237

#define	HIS_CB_HG_DIS 5.6570235

#define	HIS_CB_HG_PAR 3.946279

#define	HIS_CG_CB_H 0.6019999

#define	HIS_HE2_CG_PRJLEN 1.5392682574

#define	HIS_1oSIN_CA_CB_CG 1.092026358

#define	HIS_HE2_CG_X_DROP (2.4821480185 - 0.087)

#define	HIS_CB_CG_PERP 1.371000

Typedefs
using	protocols::kinmatch::Reals = utility::vector1< core::Real >

using	protocols::kinmatch::Sizes = utility::vector1< core::Size >

using	protocols::kinmatch::Vec = numeric::xyzVector< Real >

using	protocols::kinmatch::Mat = numeric::xyzMatrix< Real >

using	protocols::kinmatch::Vecs = utility::vector1< Vec >

Functions
static basic::Tracer	TR ("protocols.kinmatchFunGroupTK")

template<typename T >
std::string	protocols::kinmatch::str (T const &t)

template<typename T >
std::string	protocols::kinmatch::lzs (T const &t, int const w)

Real	protocols::kinmatch::sqr (Real const r)

Vec	protocols::kinmatch::xyz (Pose const &p, core::Size const &ia, core::Size const &ir)

PoseOP	protocols::kinmatch::alapose (Pose const &pose_in)

vector1< core::Size >	protocols::kinmatch::allifnone (vector1< core::Size > v, core::Size n)

void	protocols::kinmatch::dumpcgo (Vec v, string l)

void	protocols::kinmatch::xform_rsd_gl2 (Stub const &s, Residue &rsd)