aggregate_coarse_rna_vdw.cc File Reference

#include <utility/json_utilities.hh>
#include <core/types.hh>
#include <basic/options/option.hh>
#include <basic/options/option_macros.hh>
#include <protocols/viewer/viewers.hh>
#include <core/pose/Pose.hh>
#include <devel/init.hh>
#include <utility/vector1.hh>
#include <core/conformation/Residue.hh>
#include <core/scoring/ScoreFunctionFactory.hh>
#include <core/scoring/ScoreFunction.hh>
#include <core/chemical/ChemicalManager.hh>
#include <core/chemical/ResidueTypeSet.hh>
#include <core/id/TorsionID.hh>
#include <core/id/AtomID.hh>
#include <core/id/DOF_ID.hh>
#include <core/kinematics/MoveMap.hh>
#include <core/pose/annotated_sequence.hh>
#include <core/pose/util.hh>
#include <core/import_pose/pose_stream/PoseInputStream.hh>
#include <core/import_pose/pose_stream/PDBPoseInputStream.hh>
#include <core/import_pose/pose_stream/SilentFilePoseInputStream.hh>
#include <utility/io/ozstream.hh>
#include <utility/tools/make_vector.hh>
#include <protocols/rna/movers/RNA_Coarsify.hh>
#include <numeric/MathNTensor.hh>
#include <numeric/MathNTensor_io.hh>
#include <iostream>
#include <string>
#include <algorithm>
#include <basic/options/keys/out.OptionKeys.gen.hh>
#include <basic/options/keys/in.OptionKeys.gen.hh>
#include <utility/excn/Exceptions.hh>
#include <utility/options/keys/OptionKeyList.hh>

Classes
class	NonceHistogram

Functions
core::Real	calc_IQR (utility::vector1< core::Real > const &values)
core::Real	fdrule (utility::vector1< core::Real > const &values)
numeric::MathNTensor< core::Real, 1 >	mathntensor_from_dist (utility::vector1< Real > const &dist)
void	my_main ()
int	main (int argc, char *argv[])

Variables
static basic::Tracer	TR ("apps.pilot.awatkins.aggregate_coarse_rna_vdw")

Detailed Description

Author

Andy Watkins

Function Documentation

calc_IQR()

core::Real calc_IQR

(

utility::vector1< core::Real > const &

values

)

References test.T040_Types::values.

Referenced by fdrule().

fdrule()

core::Real fdrule

(

utility::vector1< core::Real > const &

values

)

References calc_IQR(), kmeans_adaptive_kernel_density_bb_dependent_rotlib::denominator, ObjexxFCL::pow(), and test.T040_Types::values.

Referenced by NonceHistogram::NonceHistogram().

main()

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

References argv, utility::io::oc::cout, test.T009_Exceptions::e, in::file::fasta(), basic::init(), in::file::input_res(), my_main(), in::file::native(), out::nstruct(), option, out::overwrite(), and out::file::silent().

mathntensor_from_dist()

numeric::MathNTensor< core::Real, 1 > mathntensor_from_dist

(

utility::vector1< Real > const &

dist

)

References dist(), create_a3b_hbs::ii, numeric::log(), TR, and gaussian-sampling::trial.

Referenced by my_main().

my_main()

void my_main

(

)

References utility::io::ozstream::close(), dist(), create_a3b_hbs::i, gaussian-sampling::input, create_a3b_hbs::j, create_a3b_hbs::k, oop_conformations::length, kmeans_adaptive_kernel_density_bb_dependent_rotlib::m, utility::tools::make_vector(), mathntensor_from_dist(), option, beta_nonlocal::pose, test.T200_Scoring::rsd1, test.T200_Scoring::rsd2, in::file::s(), in::file::silent(), in::file::tags(), basic::options::OptionKeys::inout::dbms::user, and numeric::write_tensor_to_file().

Referenced by main().

Variable Documentation

TR

basic::Tracer TR("apps.pilot.awatkins.aggregate_coarse_rna_vdw") ( "apps.pilot.awatkins.aggregate_coarse_rna_vdw"  )

static

Referenced by mathntensor_from_dist().