dna_relax.cc File Reference

#include <devel/dna/relax_util.hh>
#include <devel/dna/base_movers.hh>
#include <devel/cartesian_frags/DNA_FragLib.hh>
#include <utility/excn/Exceptions.hh>
#include <protocols/viewer/viewers.hh>
#include <protocols/moves/TrialMover.hh>
#include <protocols/minimization_packing/MinMover.hh>
#include <protocols/moves/MoverContainer.hh>
#include <protocols/moves/MonteCarlo.hh>
#include <core/scoring/methods/EnergyMethodOptions.hh>
#include <core/scoring/dna/setup.hh>
#include <core/scoring/func/Func.hh>
#include <core/scoring/rms_util.hh>
#include <core/scoring/ScoreFunction.hh>
#include <core/kinematics/MoveMap.hh>
#include <core/id/AtomID_Map.hh>
#include <core/pose/Pose.hh>
#include <basic/options/util.hh>
#include <basic/prof.hh>
#include <devel/init.hh>
#include <core/io/pdb/pdb_writer.hh>
#include <numeric/random/random.hh>
#include <numeric/random/random_permutation.hh>
#include <ObjexxFCL/string.functions.hh>
#include <fstream>
#include <basic/Tracer.hh>
#include <basic/options/keys/out.OptionKeys.gen.hh>
#include <basic/options/keys/dna.OptionKeys.gen.hh>
#include <core/import_pose/import_pose.hh>
#include <core/scoring/constraints/Constraint.hh>
#include <ObjexxFCL/format.hh>

Functions
std::string	filebase (std::string const &file)
void	dna_stats ()
void *	my_main (void *)
int	main (int argc, char *argv[])

Variables
static basic::Tracer	tt ("demo.phil.dna_frag_test", basic::t_trace)
static basic::Tracer	td ("demo.phil.dna_frag_test", basic::t_debug)
static basic::Tracer	ti ("demo.phil.dna_frag_test", basic::t_info)
static basic::Tracer	tw ("demo.phil.dna_frag_test", basic::t_warning)

Function Documentation

dna_stats()

void dna_stats

(

)

References ObjexxFCL::abs(), utility::io::oc::cout, basic::options::OptionKeys::dna::dna, test.T009_Exceptions::e, ObjexxFCL::format::F(), filebase(), basic::options::OptionKeys::dna::specificity::frag_files, test_terpenes::inner, input_file, basic::options::OptionKeys::epr_deer::input_files, ObjexxFCL::lead_zero_string_of(), mc, test.T400_Refinement::minmover, beta_nonlocal::mm, basic::options::OptionKeys::MonteCarlo::MonteCarlo, kmeans_adaptive_kernel_density_bb_dependent_rotlib::n, basic::options::OptionKeys::dna::specificity::n_inner, basic::options::OptionKeys::dna::specificity::n_outer, basic::options::OptionKeys::cm::nn, local::nstruct, out::nstruct(), option, options, erraser_single_res_analysis::out, drrafter_rna::output_tag, out::output_tag(), beta_nonlocal::pose, pyrosetta.distributed.io::pose_from_file, basic::prof_reset(), basic::prof_show(), numeric::random::random_permutation(), numeric::random::rg(), basic::options::OptionKeys::dna::specificity::score_function, oop_conformations::scorefxn, basic::options::OptionKeys::frags::scoring::scoring, basic::options::start_files(), ti, and basic::options::OptionKeys::inout::dbms::user.

Referenced by my_main().

filebase()

std::string filebase

(

std::string const &

file

)

References evaluate_beta_mutants::file.

Referenced by dna_stats().

main()

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

References argv, test.T009_Exceptions::e, basic::init(), my_main(), and viewer_main().

my_main()

void* my_main

(

void *

)

References dna_stats(), and utility::options::OptionKeys::options::exit.

Referenced by main().

Variable Documentation

td

basic::Tracer td("demo.phil.dna_frag_test", basic::t_debug) ( "demo.phil.dna_frag_test"  , basic::t_debug    )

static

ti

basic::Tracer ti("demo.phil.dna_frag_test", basic::t_info) ( "demo.phil.dna_frag_test"  , basic::t_info    )

static

Referenced by dna_stats().

tt

basic::Tracer tt("demo.phil.dna_frag_test", basic::t_trace) ( "demo.phil.dna_frag_test"  , basic::t_trace    )

static

tw

basic::Tracer tw("demo.phil.dna_frag_test", basic::t_warning) ( "demo.phil.dna_frag_test"  , basic::t_warning    )

static