build_full_model.cc File Reference

#include <protocols/viewer/viewers.hh>
#include <protocols/stepwise/monte_carlo/util.hh>
#include <protocols/stepwise/modeler/rna/util.hh>
#include <protocols/stepwise/modeler/util.hh>
#include <protocols/stepwise/modeler/align/util.hh>
#include <protocols/rna/movers/RNA_DeNovoOptimizer.hh>
#include <protocols/rna/denovo/RNA_DeNovoProtocol.hh>
#include <core/import_pose/options/RNA_DeNovoProtocolOptions.hh>
#include <protocols/rna/denovo/util.hh>
#include <core/types.hh>
#include <devel/init.hh>
#include <core/scoring/ScoreFunction.hh>
#include <core/scoring/ScoreFunctionFactory.hh>
#include <core/scoring/rms_util.hh>
#include <core/scoring/rna/RNA_ScoringInfo.hh>
#include <core/sequence/util.hh>
#include <core/chemical/ChemicalManager.hh>
#include <core/chemical/VariantType.hh>
#include <core/chemical/ResidueType.hh>
#include <core/chemical/ResidueProperties.hh>
#include <core/conformation/Residue.hh>
#include <core/io/silent/SilentFileData.hh>
#include <core/io/silent/BinarySilentStruct.hh>
#include <core/io/silent/util.hh>
#include <core/import_pose/import_pose.hh>
#include <core/import_pose/pose_stream/PoseInputStream.hh>
#include <core/import_pose/pose_stream/PoseInputStream.fwd.hh>
#include <core/import_pose/pose_stream/PDBPoseInputStream.hh>
#include <core/import_pose/pose_stream/SilentFilePoseInputStream.hh>
#include <core/pose/Pose.hh>
#include <core/pose/variant_util.hh>
#include <core/pose/extra_pose_info_util.hh>
#include <core/pose/rna/util.hh>
#include <core/scoring/Energies.hh>
#include <core/pose/full_model_info/FullModelInfo.hh>
#include <core/pose/full_model_info/util.hh>
#include <basic/Tracer.hh>
#include <basic/options/option.hh>
#include <basic/options/option_macros.hh>
#include <basic/options/keys/OptionKeys.hh>
#include <basic/options/keys/in.OptionKeys.gen.hh>
#include <basic/options/keys/out.OptionKeys.gen.hh>
#include <basic/options/keys/chemical.OptionKeys.gen.hh>
#include <basic/options/keys/score.OptionKeys.gen.hh>
#include <basic/options/keys/stepwise.OptionKeys.gen.hh>
#include <utility/vector1.hh>
#include <utility/excn/Exceptions.hh>
#include <iostream>
#include <string>

Classes
class	BuildFullModel

Functions
void	output_seq_with_residue_emphasis (std::string const &seq, Size const res)
void	build_full_model_test ()
void *	my_main (void *)
int	main (int argc, char *argv[])

Variables
static basic::Tracer	TR ("apps.pilot.calebgeniesse.build_full_model")

Function Documentation

void build_full_model_test

(

)

References pyrosetta::create_score_function, basic::Tracer::Cyan, basic::Tracer::Debug, basic::Tracer::Magenta, option, out::overwrite(), basic::Tracer::Red, basic::Tracer::Reset, basic::options::OptionKeys::DisulfideInsertion::scorefxn, in::file::silent(), out::file::silent(), tag, in::file::tags(), TR, basic::options::OptionKeys::inout::dbms::user, utility_exit_with_message, basic::Tracer::Warning, and score::weights().

Referenced by my_main().

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

References utility::io::oc::cout, basic::options::OptionKeys::matdes::dock::dump_pdb, test.T009_Exceptions::e, utility::options::OptionKeys::options::exit, devel::init(), utility::excn::Exception::msg(), my_main(), and NEW_OPT.

void* my_main

(

void *

)

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

Referenced by main().

void output_seq_with_residue_emphasis	(	std::string const &	seq,
		Size const	res
	)

References basic::Tracer::Blue, test.T200_Scoring::ii, basic::Tracer::Reset, TR, and basic::Tracer::Trace.

Referenced by BuildFullModel::make_built_residues_repulsive().

Variable Documentation

basic::Tracer TR("apps.pilot.calebgeniesse.build_full_model")

static

Referenced by build_full_model_test(), BuildFullModel::fill_and_sample_full_model(), BuildFullModel::make_built_residues_repulsive(), BuildFullModel::make_built_residues_virtual(), and output_seq_with_residue_emphasis().