IKFGDB.cc File Reference

#include <basic/options/keys/in.OptionKeys.gen.hh>
#include <basic/options/option.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/import_pose/import_pose.hh>
#include <devel/init.hh>
#include <core/kinematics/FoldTree.hh>
#include <core/kinematics/Stub.hh>
#include <utility/graph/Graph.hh>
#include <core/pack/packer_neighbors.hh>
#include <core/pack/rotamer_set/RotamerSetFactory.hh>
#include <core/pack/rotamer_set/RotamerSet.hh>
#include <core/pack/task/PackerTask.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/func/HarmonicFunc.hh>
#include <core/scoring/sasa.hh>
#include <core/scoring/ScoreFunction.hh>
#include <core/scoring/ScoreFunctionFactory.hh>
#include <numeric/random/random.hh>
#include <numeric/constants.hh>
#include <numeric/xyz.functions.hh>
#include <numeric/xyz.io.hh>
#include <ObjexxFCL/FArray2D.hh>
#include <ObjexxFCL/format.hh>
#include <ObjexxFCL/string.functions.hh>
#include <protocols/scoring/ImplicitFastClashCheck.hh>
#include <sstream>
#include <protocols/moves/MoverStatistics.hh>
#include <utility/vector0.hh>
#include <utility/vector1.hh>
#include <core/pose/init_id_map.hh>
#include <apps/pilot/will/will_util.ihh>

Classes
class	RotSel
class	BruteRotSel
class	KinRotSel

Typedefs
typedef utility::vector1< core::Real >	Reals
typedef utility::vector1< core::Size >	Sizes
typedef numeric::xyzVector< Real >	Vec
typedef numeric::xyzMatrix< Real >	Mat
typedef utility::vector1< Vec >	Vecs

Functions
Real const	sqr (Real const r)
Vec	xyz (Pose const &p, Size const &ia, Size const &ir)
Pose &	alapose (Pose &pose)
vector1< Size >	allifnone (vector1< Size > v, Size n)
core::pack::rotamer_set::RotamerSetOP	get_rotset (Pose &pose, Size icys)
void	run (std::string fname)
int	main (int argc, char *argv[])

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

Typedef Documentation

Mat

typedef numeric::xyzMatrix<Real> Mat

Reals

typedef utility::vector1<core::Real> Reals

Sizes

typedef utility::vector1<core::Size> Sizes

Vec

typedef numeric::xyzVector<Real> Vec

Vecs

typedef utility::vector1<Vec> Vecs

Function Documentation

alapose()

Pose& alapose

(

Pose &

pose

)

References create_a3b_hbs::i, and beta_nonlocal::pose.

Referenced by run().

allifnone()

vector1<Size> allifnone	(	vector1< Size >	v,
		Size	n
	)

References create_a3b_hbs::i, kmeans_adaptive_kernel_density_bb_dependent_rotlib::n, and kmeans_adaptive_kernel_density_bb_dependent_rotlib::v.

get_rotset()

core::pack::rotamer_set::RotamerSetOP get_rotset	(	Pose &	pose,
		Size	icys
	)

References beta_nonlocal::pose.

Referenced by run().

main()

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

References argv, test.T009_Exceptions::e, basic::init(), basic::options::option, option, run(), and in::file::s().

run()

void run

(

std::string

fname

)

References alapose(), pyrosetta::create_score_function, get_rotset(), basic::options::option, option, RotSel::place_n(), beta_nonlocal::pose, pyrosetta.distributed.io::pose_from_file, in::file::s(), basic::options::OptionKeys::frags::scoring::scoring, and TR.

Referenced by main().

sqr()

Real const sqr ( Real const  r )

inline

References create_a3b_hbs::r.

Referenced by KinRotSel::place_n().

xyz()

Vec xyz ( Pose const &  p, Size const &  ia, Size const &  ir  )

inline

References kmeans_adaptive_kernel_density_bb_dependent_rotlib::p.

Referenced by RotSel::RotSel().

Variable Documentation

TR

basic::Tracer TR("IKFGDB") ( "IKFGDB"  )

static

Referenced by KinRotSel::place_n(), and run().