rna_denovo.cc File Reference

#include <core/types.hh>
#include <core/chemical/AA.hh>
#include <core/chemical/ChemicalManager.hh>
#include <core/scoring/ScoreFunction.hh>
#include <core/scoring/ScoreFunctionFactory.hh>
#include <core/scoring/constraints/ConstraintSet.hh>
#include <core/scoring/constraints/ConstraintSet.fwd.hh>
#include <core/scoring/constraints/ConstraintIO.hh>
#include <core/sequence/util.hh>
#include <core/import_pose/pose_stream/SilentFilePoseInputStream.hh>
#include <basic/options/option.hh>
#include <basic/database/open.hh>
#include <basic/options/option_macros.hh>
#include <protocols/viewer/viewers.hh>
#include <core/pose/Pose.hh>
#include <core/init/init.hh>
#include <core/io/pdb/pose_io.hh>
#include <core/io/rna/RNA_DataReader.hh>
#include <utility/vector1.hh>
#include <ObjexxFCL/string.functions.hh>
#include <protocols/farna/RNA_DeNovoProtocol.hh>
#include <protocols/farna/options/RNA_DeNovoProtocolOptions.hh>
#include <protocols/farna/util.hh>
#include <iostream>
#include <string>
#include <basic/options/keys/out.OptionKeys.gen.hh>
#include <basic/options/keys/in.OptionKeys.gen.hh>
#include <basic/options/keys/chemical.OptionKeys.gen.hh>
#include <basic/options/keys/rna.OptionKeys.gen.hh>
#include <basic/options/keys/constraints.OptionKeys.gen.hh>
#include <basic/options/keys/score.OptionKeys.gen.hh>
#include <core/import_pose/import_pose.hh>
#include <core/pose/annotated_sequence.hh>
#include <core/sequence/Sequence.hh>
#include <utility/file/file_sys_util.hh>
#include <utility/excn/Exceptions.hh>

Go to the source code of this file.

Functions
vector1< pose::PoseOP >	get_refine_pose_list (std::string const &input_silent_file, std::pair< utility::vector1< int >, utility::vector1< char > > const &output_res_and_chain, core::chemical::ResidueTypeSetCOP rsd_set)
void	rna_denovo_test ()
void *	my_main (void *)
int	main (int argc, char *argv[])

Detailed Description

Author

Rhiju Das

Definition in file rna_denovo.cc.

Function Documentation

vector1< pose::PoseOP > get_refine_pose_list	(	std::string const &	input_silent_file,
		std::pair< utility::vector1< int >, utility::vector1< char > > const &	output_res_and_chain,
		core::chemical::ResidueTypeSetCOP	rsd_set
	)

Definition at line 153 of file rna_denovo.cc.

References app.surface_docking.surface_docking::input.

Referenced by rna_denovo_test().

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

Definition at line 184 of file rna_denovo.cc.

References close_loops(), utility::io::oc::cout, test.G100_Functions_Input::cst_file, demo.D060_Folding::cycles, yaml::dump(), basic::init(), utility::excn::EXCN_Base::msg(), my_main(), ContactMap::native, local::nstruct, option, options, basic::options::silent, and test.T200_Scoring::weights.

void* my_main

(

void *

)

Definition at line 174 of file rna_denovo.cc.

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

Referenced by main().

void rna_denovo_test

(

)

Definition at line 72 of file rna_denovo.cc.

References app.surface_docking.surface_docking::constraints, test.G100_Functions_Input::cst_file, get_refine_pose_list(), ContactMap::native, test.Workshop7test::native_pose, option, options, app.surface_docking.surface_docking::path, app.surface_docking.surface_docking::pose, runtime_assert, PyMOL_demo::scorefxn, demo.D060_Folding::sequence, and utility::options::OptionKeys::options::user.

Referenced by my_main().