protocols::vip Namespace Reference

Classes
class	VIP_Mover
class	VIP_Report

Functions
static basic::Tracer	TR ("VIP")
bool	are_seqs_different (core::pose::Pose &p1, core::pose::Pose &p2)
std::string	base_name (const std::string &str)
std::string	get_out_tag (std::string const &fname)
core::Real	output_packstat (core::pose::Pose &pose)
void	set_local_movemap (core::pose::Pose &pose, core::Size position, core::kinematics::MoveMapOP mmap)

Function Documentation

are_seqs_different()

bool protocols::vip::are_seqs_different	(	core::pose::Pose &	p1,
		core::pose::Pose &	p2
	)

References core::conformation::Residue::name(), core::pose::Pose::residue(), and core::pose::Pose::size().

base_name()

std::string protocols::vip::base_name

(

const std::string &

str

)

References core::sequence::end, and protocols::kinmatch::str().

Referenced by core::pack::palette::PackerPalette::add_base_residue_types_by_properties(), protocols::jd2::JobOutputter::affixed_numbered_name(), core::io::pose_to_sfr::PoseToStructFileRepConverter::append_residue_info_to_sfr(), protocols::hybridization::CartesianSampler::apply(), protocols::ligand_docking::StartFrom::apply(), protocols::simple_moves::a3b_hbs::A3BHbsPatcher::apply(), protocols::simple_moves::hbs::HbsPatcher::apply(), protocols::electron_density::DockFragmentsIntoDensityMover::apply_multi(), core::io::pdb::create_records_from_sfr(), protocols::ligand_docking::HighResDocker::enable_ligand_rotamer_packing(), protocols::ligand_docking::ProtLigEnsemble::enable_ligand_rotamer_packing(), protocols::jd3::pose_outputters::SilentFilePoseOutputter::filename_for_output_job(), protocols::residue_optimization::MetapatchEnumeration::generate_derived_types(), protocols::simple_moves::chiral::get_chiral_residue_type(), get_out_tag(), core::chemical::ResidueTypeSet::get_representative_type_base_name(), core::chemical::ResidueTypeSet::get_residue_type_with_custom_variant_added(), core::chemical::ResidueTypeSet::get_residue_type_with_variant_added(), core::chemical::ResidueTypeSet::get_residue_type_with_variant_removed(), core::chemical::io::get_SplitBehaviors(), core::pack::task::PIKAA::initialize_from_tokens(), core::pack::task::NOTAA::initialize_from_tokens(), protocols::ligand_docking::ProtLigEnsemble::make_packer_task(), protocols::ligand_docking::HighResDocker::make_packer_task_from_vector(), core::io::NomenclatureManager::pdb_code_from_rosetta_name(), core::io::pose_from_sfr::PoseFromSFRBuilder::pre_process_residue_type_information(), core::chemical::residue_type_base_name(), core::io::NomenclatureManager::rosetta_names_from_pdb_code(), protocols::analysis::InterfaceAnalyzerMover::scorefile_column_name(), core::pose::Pose::virtual_to_real(), and core::chemical::write_topology_file().

get_out_tag()

std::string protocols::vip::get_out_tag

(

std::string const &

fname

)

References base_name().

output_packstat()

core::Real protocols::vip::output_packstat

(

core::pose::Pose &

pose

)

Referenced by protocols::vip::VIP_Report::get_GOE_packstat_report().

set_local_movemap()

void protocols::vip::set_local_movemap	(	core::pose::Pose &	pose,
		core::Size	position,
		core::kinematics::MoveMapOP	mmap
	)

References core::pose::Pose::energies(), and core::scoring::Energies::energy_graph().

Referenced by protocols::vip::VIP_Mover::relax_favorable_poses().

TR()

static basic::Tracer protocols::vip::TR ( "VIP"  )

static

Referenced by protocols::vip::VIP_Mover::get_neighbors(), protocols::vip::VIP_Mover::set_excluded_positions(), and protocols::vip::VIP_Mover::skip_relax().