adding_peptoids.cc File Reference

#include <core/chemical/ChemicalManager.hh>
#include <core/chemical/ResidueTypeSet.hh>
#include <core/chemical/ResidueType.fwd.hh>
#include <core/conformation/Residue.fwd.hh>
#include <core/conformation/ResidueFactory.hh>
#include <core/pack/pack_rotamers.hh>
#include <core/pack/task/PackerTask.hh>
#include <core/pack/task/TaskFactory.hh>
#include <core/pose/Pose.fwd.hh>
#include <core/pose/Pose.hh>
#include <core/scoring/ScoreFunction.hh>
#include <core/scoring/ScoreFunctionFactory.hh>
#include <devel/init.hh>
#include <protocols/moves/PyMOLMover.hh>
#include <utility/vector1.hh>
#include <iostream>

Functions
static void	parse_sequence (std::string const &sequence_in, utility::vector1< std::string > &fullname_list)
	parse the annotated sequence. More...
static core::chemical::ResidueTypeCOPs	residue_types_from_sequence (std::string const &sequence_in, core::chemical::ResidueTypeSet const &residue_set)
int	main (int argc, char **argv)

Function Documentation

main()

int main	(	int	argc,
		char **	argv
	)

References argv, utility::io::oc::cout, pyrosetta.io::create_score_function, create_a3b_hbs::i, basic::init(), basic::options::OptionKeys::in::file::residue_type_set, residue_types_from_sequence(), and test.T120_core::sfxn.

parse_sequence()

static void parse_sequence ( std::string const &  sequence_in, utility::vector1< std::string > &  fullname_list  )

static

parse the annotated sequence.

References aa, utility::io::oc::cout, and ObjexxFCL::last_index().

Referenced by ConstraintConfig::parse_config_file(), and residue_types_from_sequence().

residue_types_from_sequence()

static core::chemical::ResidueTypeCOPs residue_types_from_sequence ( std::string const &  sequence_in, core::chemical::ResidueTypeSet const &  residue_set  )

static

Given a peptoid sequence where each three digit code represents an amino acid, and a ResidueTypeSet, return the residue types that match the sequence.

References parse_sequence().

Referenced by addcyclicconstraints(), dsRNA_grow::append_Aform_residue(), append_alanines(), append_sequence_to_pose(), fix_cyclic_termini(), main(), dsRNA_grow::prepend_Aform_residue(), and ConstraintConfig::residue_names_from_sequence().