xyzStripeHash_test.cc File Reference

#include <numeric/geometry/hashing/xyzStripeHash.hh>
#include <protocols/sic_dock/types.hh>
#include <protocols/sic_dock/xyzStripeHashPose.hh>
#include <basic/options/option.hh>
#include <basic/options/keys/in.OptionKeys.gen.hh>
#include <basic/options/keys/out.OptionKeys.gen.hh>
#include <basic/options/option_macros.hh>
#include <basic/Tracer.hh>
#include <core/import_pose/import_pose.hh>
#include <core/pose/util.hh>
#include <devel/init.hh>
#include <numeric/xyzVector.hh>
#include <numeric/random/random.hh>
#include <numeric/xyz.io.hh>
#include <fstream>
#include <protocols/scoring/ImplicitFastClashCheck.hh>
#include <core/kinematics/Stub.hh>
#include <core/conformation/AtomGraphData.hh>
#include <core/conformation/AtomGraph.hh>
#include <core/conformation/find_neighbors.hh>
#include <set>
#include <time.h>
#include <sys/time.h>
#include <stdio.h>

Classes
struct	CollectNeighbors

Typedefs
typedef numeric::xyzVector< float >	Vec

Functions
double	time_highres ()
void	register_options ()
int	slow_nbcount (protocols::sic_dock::xyzStripeHashPose const &xyzhash, float DIST, Vec const &rv)
int	slow_nbcount (core::pose::Pose const &pose, float DIST, Vec const &rv)
void	slow_nbset (core::pose::Pose const &pose, float DIST, Vec const &rv, std::set< int > &nbrs)
bool	slow_clash (core::pose::Pose const &pose, float DIST, Vec const &rv)
utility::vector1< Vec >	slow_nbget (protocols::sic_dock::xyzStripeHashPose const &xyzhash, float DIST, Vec const &rv)
void	dump_points_pdb (utility::vector1< Vec > &p, std::string fn)
void	test_find_neighbors (core::pose::Pose const &p)
int	main (int argc, char *argv[])

Typedef Documentation

Vec

typedef numeric::xyzVector<float> Vec

Function Documentation

dump_points_pdb()

void dump_points_pdb	(	utility::vector1< Vec > &	p,
		std::string	fn
	)

References ObjexxFCL::format::F(), kmeans_adaptive_kernel_density_bb_dependent_rotlib::fn, create_a3b_hbs::i, test.T110_numeric::I, basic::options::OptionKeys::out::file::o, kmeans_adaptive_kernel_density_bb_dependent_rotlib::p, x, predPRE::y, and predPRE::z.

main()

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

References argv, CA, demo.D060_Folding::counter, utility::io::oc::cout, test.T009_Exceptions::e, ObjexxFCL::format::F(), create_a3b_hbs::i, ObjexxFCL::format::I(), basic::init(), enumerate_junctions::int, create_a3b_hbs::j, natoms(), CollectNeighbors::nbrs, basic::options::OptionKeys::out::nstruct, basic::options::option, kmeans_adaptive_kernel_density_bb_dependent_rotlib::p, pyrosetta.distributed.io::pose_from_file, register_options(), basic::options::OptionKeys::in::file::s, slow_clash(), slow_nbget(), slow_nbset(), predPRE::t, test_find_neighbors(), time_highres(), numeric::random::uniform(), utility_exit_with_message, CollectNeighbors::visit(), numeric::xyzVector< T >::x(), numeric::xyzVector< T >::y(), and numeric::xyzVector< T >::z().

register_options()

void register_options

(

)

References NEW_OPT, OPT, and basic::options::OptionKeys::in::file::s.

Referenced by main().

slow_clash()

bool slow_clash	(	core::pose::Pose const &	pose,
		float	DIST,
		Vec const &	rv
	)

References numeric::xyzVector< T >::distance_squared(), natoms(), and beta_nonlocal::pose.

Referenced by main().

slow_nbcount() [1/2]

int slow_nbcount	(	core::pose::Pose const &	pose,
		float	DIST,
		Vec const &	rv
	)

References numeric::xyzVector< T >::distance_squared(), natoms(), and beta_nonlocal::pose.

slow_nbcount() [2/2]

int slow_nbcount	(	protocols::sic_dock::xyzStripeHashPose const &	xyzhash,
		float	DIST,
		Vec const &	rv
	)

References enumerate_junctions::int, create_a3b_hbs::j, numeric::xyzVector< T >::x(), numeric::xyzVector< T >::y(), and numeric::xyzVector< T >::z().

slow_nbget()

utility::vector1<Vec> slow_nbget	(	protocols::sic_dock::xyzStripeHashPose const &	xyzhash,
		float	DIST,
		Vec const &	rv
	)

References kmeans_adaptive_kernel_density_bb_dependent_rotlib::c, enumerate_junctions::int, and create_a3b_hbs::j.

Referenced by main().

slow_nbset()

void slow_nbset	(	core::pose::Pose const &	pose,
		float	DIST,
		Vec const &	rv,
		std::set< int > &	nbrs
	)

References numeric::xyzVector< T >::distance_squared(), and beta_nonlocal::pose.

Referenced by main().

test_find_neighbors()

void test_find_neighbors

(

core::pose::Pose const &

p

)

References utility::io::oc::cout, basic::options::OptionKeys::score::find_neighbors_3dgrid, kmeans_adaptive_kernel_density_bb_dependent_rotlib::p, predPRE::t, and time_highres().

Referenced by main().

time_highres()

double time_highres

(

)

References info().

Referenced by main(), and test_find_neighbors().