nucleobase_sample_around.cc File Reference

#include <core/scoring/rms_util.hh>
#include <core/types.hh>
#include <core/chemical/AA.hh>
#include <core/conformation/Residue.hh>
#include <core/conformation/ResidueFactory.hh>
#include <core/chemical/ResidueTypeSet.hh>
#include <core/chemical/util.hh>
#include <core/chemical/ChemicalManager.hh>
#include <core/chemical/rna/RNA_FittedTorsionInfo.hh>
#include <core/scoring/ScoreFunction.hh>
#include <core/scoring/ScoreFunctionFactory.hh>
#include <core/scoring/ScoringManager.hh>
#include <core/chemical/rna/util.hh>
#include <core/kinematics/FoldTree.hh>
#include <core/kinematics/Jump.hh>
#include <core/kinematics/MoveMap.hh>
#include <core/kinematics/Stub.hh>
#include <core/io/silent/SilentFileData.hh>
#include <core/io/silent/BinarySilentStruct.hh>
#include <core/pose/util.hh>
#include <core/pose/rna/util.hh>
#include <core/pose/annotated_sequence.hh>
#include <core/pose/Pose.hh>
#include <core/init/init.hh>
#include <utility/vector1.hh>
#include <utility/io/ozstream.hh>
#include <utility/io/izstream.hh>
#include <utility/basic_sys_util.hh>
#include <numeric/xyzVector.hh>
#include <numeric/conversions.hh>
#include <ObjexxFCL/format.hh>
#include <ObjexxFCL/string.functions.hh>
#include <core/import_pose/import_pose.hh>
#include <protocols/stepwise/modeler/util.hh>
#include <protocols/toolbox/sample_around/util.hh>
#include <protocols/viewer/viewers.hh>
#include <basic/options/option.hh>
#include <basic/options/option_macros.hh>
#include <basic/options/keys/chemical.OptionKeys.gen.hh>
#include <basic/options/keys/out.OptionKeys.gen.hh>
#include <basic/options/keys/in.OptionKeys.gen.hh>
#include <basic/options/keys/score.OptionKeys.gen.hh>
#include <basic/options/keys/sample_around.OptionKeys.gen.hh>
#include <fstream>
#include <iostream>
#include <string>
#include <utility/excn/Exceptions.hh>

Typedefs
typedef numeric::xyzMatrix< Real >	Matrix

Functions
void	nucleobase_probe_score_test ()
void	quick_score_test ()
void *	my_main (void *)
int	main (int argc, char *argv[])

Typedef Documentation

typedef numeric::xyzMatrix< Real > Matrix

Function Documentation

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

References sample_around::alpha_increment(), sample_around::cosbeta_increment(), utility::io::oc::cout, sample_around::gamma_increment(), basic::init(), utility::excn::EXCN_Base::msg(), my_main(), NEW_OPT, and option.

void* my_main

(

void *

)

References utility::options::OptionKeys::options::exit, nucleobase_probe_score_test(), option, and quick_score_test().

Referenced by main().

void nucleobase_probe_score_test

(

)

References basic::options::OptionKeys::chemical::chemical, clean_pdb_keep_ligand::count, utility::io::oc::cout, pyrosetta::create_score_function, demo.D060_Folding::f, pyrosetta::get_score_function, basic::options::OptionKeys::frags::j, ObjexxFCL::lead_zero_string_of(), option, basic::options::OptionKeys::canonical_sampling::out::out, app.surface_docking.surface_docking::pose, out::prefix(), runtime_assert, in::file::s(), basic::options::OptionKeys::in::file::s, PyMOL_demo::scorefxn, basic::options::OptionKeys::frags::scoring::scoring, basic::options::OptionKeys::relax::sequence, basic::options::OptionKeys::in::file::silent, out::file::silent(), basic::options::OptionKeys::inout::dbms::user, score::weights(), x(), y(), and z().

Referenced by my_main().

void quick_score_test

(

)

References basic::options::OptionKeys::chemical::chemical, utility::io::oc::cout, pyrosetta::create_score_function, pyrosetta::get_score_function, option, app.surface_docking.surface_docking::pose, in::file::s(), PyMOL_demo::scorefxn, basic::options::OptionKeys::frags::scoring::scoring, basic::options::OptionKeys::inout::dbms::user, and score::weights().

Referenced by my_main().