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Rosetta 3.5
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All Classes Namespaces Files Functions Variables Typedefs Enumerations Enumerator Friends Macros Pages
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Rosetta 3.5
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options system initialization routines More...
#include <time.h>#include <core/init.hh>#include <core/svn_version.hh>#include <core/types.hh>#include <basic/options/option.hh>#include <utility/basic_sys_util.hh>#include <utility/excn/Exceptions.hh>#include <utility/io/izstream.hh>#include <basic/Tracer.hh>#include <basic/prof.hh>#include <core/scoring/constraints/ConstraintsEnergyCreator.hh>#include <core/scoring/disulfides/CentroidDisulfideEnergyCreator.hh>#include <core/scoring/disulfides/DisulfideMatchingEnergyCreator.hh>#include <core/scoring/disulfides/FullatomDisulfideEnergyCreator.hh>#include <core/scoring/etable/EtableEnergyCreator.hh>#include <core/scoring/hbonds/HBondEnergyCreator.hh>#include <core/scoring/methods/EnergyMethodRegistrator.hh>#include <core/scoring/methods/CenPairEnergyCreator.hh>#include <core/scoring/methods/ChainbreakEnergyCreator.hh>#include <core/scoring/methods/ContactOrderEnergyCreator.hh>#include <core/scoring/methods/EnvEnergyCreator.hh>#include <core/scoring/methods/EnvSmoothEnergyCreator.hh>#include <core/scoring/methods/NMerRefEnergyCreator.hh>#include <core/scoring/methods/NMerPSSMEnergyCreator.hh>#include <core/scoring/methods/OmegaTetherEnergyCreator.hh>#include <core/scoring/methods/P_AA_EnergyCreator.hh>#include <core/scoring/methods/P_AA_pp_EnergyCreator.hh>#include <core/scoring/methods/PackStatEnergyCreator.hh>#include <core/scoring/methods/PairEnergyCreator.hh>#include <core/scoring/methods/PeptideBondEnergyCreator.hh>#include <core/scoring/methods/ProClosureEnergyCreator.hh>#include <core/scoring/methods/BurialEnergyCreator.hh>#include <core/scoring/methods/RG_Energy_FastCreator.hh>#include <core/scoring/methods/SA_EnergyCreator.hh>#include <core/scoring/methods/RMS_EnergyCreator.hh>#include <core/scoring/methods/RamachandranEnergy2BCreator.hh>#include <core/scoring/methods/RamachandranEnergyCreator.hh>#include <core/scoring/methods/ReferenceEnergyCreator.hh>#include <core/scoring/methods/ReferenceEnergyNoncanonicalCreator.hh>#include <core/scoring/methods/SecondaryStructureEnergyCreator.hh>#include <core/scoring/methods/VDW_EnergyCreator.hh>#include <core/scoring/methods/dfire/DFIRE_EnergyCreator.hh>#include <core/pack/dunbrack/DunbrackEnergyCreator.hh>#include <core/scoring/carbon_hbonds/CarbonHBondEnergyCreator.hh>#include <core/scoring/custom_pair_distance/FullatomCustomPairDistanceEnergyCreator.hh>#include <core/scoring/methods/CustomAtomPairEnergyCreator.hh>#include <core/scoring/electron_density/FastDensEnergyCreator.hh>#include <core/scoring/electron_density/ElecDensCenEnergyCreator.hh>#include <core/scoring/electron_density/ElecDensAllAtomCenEnergyCreator.hh>#include <core/scoring/electron_density/ElecDensEnergyCreator.hh>#include <core/scoring/electron_density/PattersonCorrEnergyCreator.hh>#include <core/scoring/electron_density_atomwise/ElecDensAtomwiseEnergyCreator.hh>#include <core/scoring/geometric_solvation/ExactOccludedHbondSolEnergyCreator.hh>#include <core/scoring/geometric_solvation/GeometricSolEnergyCreator.hh>#include <core/scoring/geometric_solvation/ContextIndependentGeometricSolEnergyCreator.hh>#include <core/scoring/geometric_solvation/OccludedHbondSolEnergyCreator.hh>#include <core/scoring/geometric_solvation/OccludedHbondSolEnergy_onebodyCreator.hh>#include <core/scoring/hackelec/HackElecEnergyCreator.hh>#include <core/scoring/hackelec/HackElecEnergyAroAroCreator.hh>#include <core/scoring/hackelec/HackElecEnergyAroAllCreator.hh>#include <core/scoring/hackelec/RNAHackElecEnergyCreator.hh>#include <core/scoring/hackaro/HackAroEnergyCreator.hh>#include <core/scoring/dna/DNAChiEnergyCreator.hh>#include <core/scoring/dna/DNATorsionEnergyCreator.hh>#include <core/scoring/methods/DNA_BaseEnergyCreator.hh>#include <core/scoring/methods/DirectReadoutEnergyCreator.hh>#include <core/scoring/methods/DistanceChainbreakEnergyCreator.hh>#include <core/scoring/methods/Fa_MbenvEnergyCreator.hh>#include <core/scoring/methods/Fa_MbsolvEnergyCreator.hh>#include <core/scoring/methods/GenBornEnergyCreator.hh>#include <core/scoring/methods/HybridVDW_EnergyCreator.hh>#include <core/scoring/methods/LK_CosThetaEnergyCreator.hh>#include <core/scoring/methods/LK_hackCreator.hh>#include <core/scoring/methods/LK_BallEnergyCreator.hh>#include <core/scoring/methods/LinearChainbreakEnergyCreator.hh>#include <core/scoring/methods/MMBondAngleEnergyCreator.hh>#include <core/scoring/methods/MMBondLengthEnergyCreator.hh>#include <core/scoring/methods/CartesianBondedEnergyCreator.hh>#include <core/scoring/methods/MMTorsionEnergyCreator.hh>#include <core/scoring/methods/MMLJEnergyIntraCreator.hh>#include <core/scoring/methods/MMLJEnergyInterCreator.hh>#include <core/scoring/methods/MembraneCbetaEnergyCreator.hh>#include <core/scoring/methods/MembraneCenPairEnergyCreator.hh>#include <core/scoring/methods/MembraneEnvEnergyCreator.hh>#include <core/scoring/methods/MembraneEnvPenaltiesCreator.hh>#include <core/scoring/methods/MembraneLipoCreator.hh>#include <core/scoring/methods/MembraneEnvSmoothEnergyCreator.hh>#include <core/scoring/methods/pHEnergyCreator.hh>#include <core/scoring/methods/PoissonBoltzmannEnergyCreator.hh>#include <core/scoring/methods/ChemicalShiftAnisotropyEnergyCreator.hh>#include <core/scoring/methods/DipolarCouplingEnergyCreator.hh>#include <core/scoring/methods/ResidualDipolarCouplingEnergyCreator.hh>#include <core/scoring/methods/ResidualDipolarCouplingEnergy_RohlCreator.hh>#include <core/scoring/methods/SmoothCenPairEnergyCreator.hh>#include <core/scoring/methods/SmoothEnvEnergyCreator.hh>#include <core/scoring/methods/CenHBEnergyCreator.hh>#include <core/scoring/methods/SuckerEnergyCreator.hh>#include <core/scoring/methods/GaussianOverlapEnergyCreator.hh>#include <core/scoring/methods/YHHPlanarityEnergyCreator.hh>#include <core/pack/interaction_graph/SurfaceEnergyCreator.hh>#include <core/pack/interaction_graph/HPatchEnergyCreator.hh>#include <core/scoring/methods/SymmetricLigandEnergyCreator.hh>#include <core/scoring/methods/UnfoldedStateEnergyCreator.hh>#include <core/scoring/methods/WaterAdductHBondEnergyCreator.hh>#include <core/scoring/methods/WaterAdductIntraEnergyCreator.hh>#include <core/scoring/nv/NVscoreCreator.hh>#include <core/scoring/orbitals/OrbitalsScoreCreator.hh>#include <core/scoring/interface/DDPscoreCreator.hh>#include <core/scoring/packing/HolesEnergyCreator.hh>#include <core/scoring/packing/SurfVolEnergyCreator.hh>#include <core/scoring/packing/SurfEnergyCreator.hh>#include <core/scoring/rna/RG_Energy_RNACreator.hh>#include <core/scoring/rna/RNA_BulgeEnergyCreator.hh>#include <core/scoring/rna/RNA_DataBackboneEnergyCreator.hh>#include <core/scoring/rna/RNA_FullAtomStackingEnergyCreator.hh>#include <core/scoring/rna/RNA_LJ_BaseEnergyCreator.hh>#include <core/scoring/rna/RNA_PairwiseLowResolutionEnergyCreator.hh>#include <core/scoring/rna/RNA_SugarCloseEnergyCreator.hh>#include <core/scoring/rna/RNA_TorsionEnergyCreator.hh>#include <core/scoring/rna/RNA_VDW_EnergyCreator.hh>#include <core/scoring/rna/RNA_Mg_EnergyCreator.hh>#include <core/scoring/rna/RNA_FullAtomVDW_BasePhosphateCreator.hh>#include <core/scoring/rna/chemical_shift/RNA_ChemicalShiftEnergyCreator.hh>#include <core/scoring/sym_e/symECreator.hh>#include <core/scoring/saxs/FastSAXSEnergyCreator.hh>#include <core/scoring/saxs/SAXSEnergyCreator.hh>#include <core/scoring/saxs/SAXSEnergyCreatorFA.hh>#include <core/scoring/saxs/SAXSEnergyCreatorCEN.hh>#include <core/scoring/constraints/ConstraintFactory.hh>#include <core/scoring/constraints/BasicConstraintCreators.hh>#include <core/pack/dunbrack/DunbrackConstraintCreator.hh>#include <core/scoring/constraints/SequenceProfileConstraintCreator.hh>#include <core/io/silent/SilentStructFactory.hh>#include <core/io/silent/BasicSilentStructCreators.hh>#include <core/import_pose/PDBSilentStructCreator.hh>#include <core/sequence/SequenceFactory.hh>#include <core/sequence/BasicSequenceCreators.hh>#include <core/pack/task/operation/TaskOperationRegistrator.hh>#include <core/pack/task/operation/TaskOperationCreators.hh>#include <core/pack/task/operation/OperateOnCertainResiduesCreator.hh>#include <core/pack/task/operation/NoRepackDisulfidesCreator.hh>#include <core/pack/task/operation/OptCysHGCreator.hh>#include <core/pack/task/operation/OptHCreator.hh>#include <core/pack/task/operation/ResLvlTaskOperationRegistrator.hh>#include <core/pack/task/operation/ResLvlTaskOperationCreators.hh>#include <core/pack/task/operation/ResFilterRegistrator.hh>#include <core/pack/task/operation/ResFilterCreators.hh>#include <core/pack/task/operation/ReplicateTaskCreator.hh>#include <platform/types.hh>#include <basic/options/keys/in.OptionKeys.gen.hh>#include <cstring>#include <fstream>#include <sstream>#include <string>#include <basic/options/keys/out.OptionKeys.gen.hh>#include <basic/options/keys/run.OptionKeys.gen.hh>#include <basic/options/keys/corrections.OptionKeys.gen.hh>#include <basic/options/keys/score.OptionKeys.gen.hh>#include <basic/options/keys/OptionKeys.hh>#include <basic/resource_manager/ResourceLoaderRegistrator.hh>#include <core/conformation/symmetry/SymmDataLoaderCreator.hh>#include <core/conformation/symmetry/SymmDataOptionsCreator.hh>#include <core/io/silent/SilentFileLoaderCreator.hh>#include <core/io/silent/SilentFileOptionsCreator.hh>#include <core/import_pose/PoseFromPDBLoaderCreator.hh>#include <core/import_pose/import_pose_options_creator.hh>#include <basic/resource_manager/ResourceOptionsRegistrator.hh>#include <core/scoring/electron_density/ElectronDensityLoaderCreator.hh>#include <core/scoring/electron_density/ElectronDensityOptionsCreator.hh>#include <core/chemical/ResidueLoaderCreator.hh>#include <core/chemical/ResidueLoaderOptionsCreator.hh>#include <basic/options/keys/LoopModel.OptionKeys.gen.hh>#include <core/pack/task/operation/ResFilterFactory.hh>#include <core/pack/task/operation/ResLvlTaskOperationFactory.hh>#include <core/pack/task/operation/TaskOperationFactory.hh>#include <core/scoring/ScoringManager.hh>#include <utility/vector0.hh>#include <utility/vector1.hh>Go to the source code of this file.
Namespaces | |
| core | |
| A class for defining atom parameters, known as atom_types. | |
Constant Groups | |
| core | |
| A class for defining atom parameters, known as atom_types. | |
Typedefs | |
| typedef std::ostringstream | ostringstream_t |
Functions | |
| static basic::Tracer | core::TR ("core.init") |
| void | core::init_mpi (int, char **) |
| void | core::init_options (int argc, char *argv[]) |
| Initialize the option system, which manages command line options. More... | |
| void | core::init_tracers () |
| Tracers control output to std::cout and std::cerr. More... | |
| void | core::init_score_function_corrections () |
| Initialize the latest and greatest score function parameters. More... | |
| void | core::init_source_revision () |
| Choose to output source version control information? More... | |
| void | core::init_paths () |
| Setup basic search paths. More... | |
| void | core::check_deprecated_flags () |
| Check for deprecated flags specified by the user and output error messages if necessary. More... | |
| void | core::report_application_command (int argc, char *argv[]) |
| Describe the application execution command. More... | |
| void | core::init_random_number_generators () |
| Initalize random number generators. More... | |
| void | core::init_random_generators (int const start_seed, RND_RunType run_type, std::string const &RGtype) |
| Initialize random generator systems (and send debug io to tracer with seed/mode info). More... | |
| void | core::random_delay () |
| Choose to randomly delay execution to desyncronize parallel execution. More... | |
| void | core::locate_rosetta_database () |
| Locate rosetta_database. More... | |
| void | core::init_profiling () |
| Profiling measures execution performance. More... | |
| void | core::init (int argc, char *argv[]) |
| Init basic core systems: options system, random system. More... | |
| void | core::init (utility::vector1< std::string > const &args) |
| wrapper for core system Init More... | |
Variables | |
| static EnergyMethodRegistrator < scoring::constraints::ConstraintsEnergyCreator > | core::ConstraintsEnergyCreator_registrator |
| static EnergyMethodRegistrator < scoring::disulfides::CentroidDisulfideEnergyCreator > | core::CentroidDisulfideEnergyCreator_registrator |
| static EnergyMethodRegistrator < scoring::disulfides::DisulfideMatchingEnergyCreator > | core::DisulfideMatchingEnergyCreator_registrator |
| static EnergyMethodRegistrator < scoring::disulfides::FullatomDisulfideEnergyCreator > | core::FullatomDisulfideEnergyCreator_registrator |
| static EnergyMethodRegistrator < scoring::etable::EtableEnergyCreator > | core::EtableEnergyCreator_registrator |
| static EnergyMethodRegistrator < scoring::hbonds::HBondEnergyCreator > | core::HBondEnergyCreator_registrator |
| static EnergyMethodRegistrator < scoring::methods::ChainbreakEnergyCreator > | core::ChainbreakEnergyCreator_registrator |
| static EnergyMethodRegistrator < scoring::methods::CenPairEnergyCreator > | core::CenPairEnergyCreator_registrator |
| static EnergyMethodRegistrator < scoring::methods::ContactOrderEnergyCreator > | core::ContactOrderEnergyCreator_registrator |
| static EnergyMethodRegistrator < scoring::methods::EnvEnergyCreator > | core::EnvEnergyCreator_registrator |
| static EnergyMethodRegistrator < scoring::methods::EnvSmoothEnergyCreator > | core::EnvSmoothEnergyCreator_registrator |
| static EnergyMethodRegistrator < scoring::methods::OmegaTetherEnergyCreator > | core::OmegaTetherEnergyCreator_registrator |
| static EnergyMethodRegistrator < scoring::methods::NMerRefEnergyCreator > | core::NMerRefEnergyCreator_registrator |
| static EnergyMethodRegistrator < scoring::methods::NMerPSSMEnergyCreator > | core::NMerPSSMEnergyCreator_registrator |
| static EnergyMethodRegistrator < scoring::methods::P_AA_EnergyCreator > | core::P_AA_EnergyCreator_registrator |
| static EnergyMethodRegistrator < scoring::methods::P_AA_pp_EnergyCreator > | core::P_AA_pp_EnergyCreator_registrator |
| static EnergyMethodRegistrator < scoring::methods::PackStatEnergyCreator > | core::PackStatEnergyCreator_registrator |
| static EnergyMethodRegistrator < scoring::methods::PairEnergyCreator > | core::PairEnergyCreator_registrator |
| static EnergyMethodRegistrator < scoring::methods::PeptideBondEnergyCreator > | core::PeptideBondEnergyCreator_registrator |
| static EnergyMethodRegistrator < scoring::methods::ProClosureEnergyCreator > | core::ProClosureEnergyCreator_registrator |
| static EnergyMethodRegistrator < scoring::methods::BurialEnergyCreator > | core::BurialCreator_registrator |
| static EnergyMethodRegistrator < scoring::methods::RG_Energy_FastCreator > | core::RG_Energy_FastCreator_registrator |
| static EnergyMethodRegistrator < scoring::methods::SA_EnergyCreator > | core::SA_EnergyCreator_registrator |
| static EnergyMethodRegistrator < scoring::methods::RMS_EnergyCreator > | core::RMS_EnergyCreator_registrator |
| static EnergyMethodRegistrator < scoring::methods::RamachandranEnergy2BCreator > | core::RamachandranEnergy2BCreator_registrator |
| static EnergyMethodRegistrator < scoring::methods::RamachandranEnergyCreator > | core::RamachandranEnergyCreator_registrator |
| static EnergyMethodRegistrator < scoring::methods::ReferenceEnergyCreator > | core::ReferenceEnergyCreator_registrator |
| static EnergyMethodRegistrator < scoring::methods::ReferenceEnergyNoncanonicalCreator > | core::ReferenceEnergyNoncanonicalCreator_registrator |
| static EnergyMethodRegistrator < scoring::methods::SecondaryStructureEnergyCreator > | core::SecondaryStructureEnergyCreator_registrator |
| static EnergyMethodRegistrator < scoring::methods::VDW_EnergyCreator > | core::VDW_EnergyCreator_registrator |
| static EnergyMethodRegistrator < scoring::methods::dfire::DFIRE_EnergyCreator > | core::DFIRE_EnergyCreator_registrator |
| static EnergyMethodRegistrator < pack::dunbrack::DunbrackEnergyCreator > | core::DunbrackEnergyCreator_registrator |
| static EnergyMethodRegistrator < scoring::nv::NVscoreCreator > | core::NVscoreCreator_registrator |
| static EnergyMethodRegistrator < scoring::orbitals::OrbitalsScoreCreator > | core::OrbitalsScoreCreator_registrator |
| static EnergyMethodRegistrator < scoring::interface::DDPscoreCreator > | core::DDPscoreCreator_registrator |
| static EnergyMethodRegistrator < scoring::carbon_hbonds::CarbonHBondEnergyCreator > | core::CarbonHBondEnergyCreator_registrator |
| static EnergyMethodRegistrator < scoring::custom_pair_distance::FullatomCustomPairDistanceEnergyCreator > | core::FullatomCustomPairDistanceEnergyCreator_registrator |
| static EnergyMethodRegistrator < scoring::methods::CustomAtomPairEnergyCreator > | core::CustomAtomPairEnergy_registrator |
| static EnergyMethodRegistrator < scoring::electron_density::FastDensEnergyCreator > | core::FastDensEnergyCreator_registrator |
| static EnergyMethodRegistrator < scoring::electron_density::ElecDensCenEnergyCreator > | core::ElecDensCenEnergyCreator_registrator |
| static EnergyMethodRegistrator < scoring::electron_density::ElecDensAllAtomCenEnergyCreator > | core::ElecDensAllAtomCenEnergyCreator_registrator |
| static EnergyMethodRegistrator < scoring::electron_density::ElecDensEnergyCreator > | core::ElecDensEnergyCreator_registrator |
| static EnergyMethodRegistrator < scoring::electron_density::PattersonCorrEnergyCreator > | core::PattersonCorrEnergyCreator_registrator |
| static EnergyMethodRegistrator < scoring::electron_density_atomwise::ElecDensAtomwiseEnergyCreator > | core::ElecDensAtomwiseEnergyCreator_registrator |
| static EnergyMethodRegistrator < scoring::geometric_solvation::ExactOccludedHbondSolEnergyCreator > | core::ExactOccludedHbondSolEnergyCreator_registrator |
| static EnergyMethodRegistrator < scoring::geometric_solvation::GeometricSolEnergyCreator > | core::GeometricSolEnergyCreator_registrator |
| static EnergyMethodRegistrator < scoring::geometric_solvation::ContextIndependentGeometricSolEnergyCreator > | core::ContextIndependentGeometricSolEnergyCreator_registrator |
| static EnergyMethodRegistrator < scoring::geometric_solvation::OccludedHbondSolEnergyCreator > | core::OccludedHbondSolEnergyCreator_registrator |
| static EnergyMethodRegistrator < scoring::geometric_solvation::OccludedHbondSolEnergy_onebodyCreator > | core::OccludedHbondSolEnergy_onebodyCreator_registrator |
| static EnergyMethodRegistrator < scoring::hackelec::HackElecEnergyCreator > | core::HackElecEnergyCreator_registrator |
| static EnergyMethodRegistrator < scoring::hackelec::RNAHackElecEnergyCreator > | core::RNAHackElecEnergyCreator_registrator |
| static EnergyMethodRegistrator < scoring::hackelec::HackElecEnergyAroAroCreator > | core::HackElecEnergyAroAroCreator_registrator |
| static EnergyMethodRegistrator < scoring::hackelec::HackElecEnergyAroAllCreator > | core::HackElecEnergyAroAllCreator_registrator |
| static EnergyMethodRegistrator < scoring::hackaro::HackAroEnergyCreator > | core::HackAroEnergyCreator_registrator |
| static EnergyMethodRegistrator < scoring::dna::DNAChiEnergyCreator > | core::DNAChiEnergyCreator_registrator |
| static EnergyMethodRegistrator < scoring::dna::DNATorsionEnergyCreator > | core::DNATorsionEnergyCreator_registrator |
| static EnergyMethodRegistrator < scoring::methods::DNA_BaseEnergyCreator > | core::DNA_BaseEnergyCreator_registrator |
| static EnergyMethodRegistrator < scoring::methods::DirectReadoutEnergyCreator > | core::DirectReadoutEnergyCreator_registrator |
| static EnergyMethodRegistrator < scoring::methods::DistanceChainbreakEnergyCreator > | core::DistanceChainbreakEnergyCreator_registrator |
| static EnergyMethodRegistrator < scoring::methods::Fa_MbenvEnergyCreator > | core::Fa_MbenvEnergyCreator_registrator |
| static EnergyMethodRegistrator < scoring::methods::Fa_MbsolvEnergyCreator > | core::Fa_MbsolvEnergyCreator_registrator |
| static EnergyMethodRegistrator < scoring::methods::GenBornEnergyCreator > | core::GenBornEnergyCreator_registrator |
| static EnergyMethodRegistrator < scoring::methods::HybridVDW_EnergyCreator > | core::HybridVDW_EnergyCreator_registrator |
| static EnergyMethodRegistrator < scoring::methods::LK_CosThetaEnergyCreator > | core::LK_CosThetaEnergyCreator_registrator |
| static EnergyMethodRegistrator < scoring::methods::LK_hackCreator > | core::LK_hackCreator_registrator |
| static EnergyMethodRegistrator < scoring::methods::LK_BallEnergyCreator > | core::LK_BallEnergyCreator_registrator |
| static EnergyMethodRegistrator < scoring::methods::LinearChainbreakEnergyCreator > | core::LinearChainbreakEnergyCreator_registrator |
| static EnergyMethodRegistrator < scoring::methods::MMBondAngleEnergyCreator > | core::MMBondAngleEnergyCreator_registrator |
| static EnergyMethodRegistrator < scoring::methods::CartesianBondedEnergyCreator > | core::CartesianBondedEnergyCreator_registrator |
| static EnergyMethodRegistrator < scoring::methods::MMBondLengthEnergyCreator > | core::MMBondLengthEnergyCreator_registrator |
| static EnergyMethodRegistrator < scoring::methods::MMTorsionEnergyCreator > | core::MMTorsionEnergyCreator_registrator |
| static EnergyMethodRegistrator < scoring::methods::MMLJEnergyInterCreator > | core::MMLJEnergyInterCreator_registrator |
| static EnergyMethodRegistrator < scoring::methods::MMLJEnergyIntraCreator > | core::MMLJEnergyIntraCreator_registrator |
| static EnergyMethodRegistrator < scoring::methods::MembraneCbetaEnergyCreator > | core::MembraneCbetaEnergyCreator_registrator |
| static EnergyMethodRegistrator < scoring::methods::MembraneCenPairEnergyCreator > | core::MembraneCenPairEnergyCreator_registrator |
| static EnergyMethodRegistrator < scoring::methods::MembraneEnvEnergyCreator > | core::MembraneEnvEnergyCreator_registrator |
| static EnergyMethodRegistrator < scoring::methods::MembraneEnvPenaltiesCreator > | core::MembraneEnvPenaltiesCreator_registrator |
| static EnergyMethodRegistrator < scoring::methods::SmoothCenPairEnergyCreator > | core::SmoothCenPairEnergyCreator_registrator |
| static EnergyMethodRegistrator < scoring::methods::SmoothEnvEnergyCreator > | core::SmoothEnvEnergyCreator_registrator |
| static EnergyMethodRegistrator < scoring::methods::CenHBEnergyCreator > | core::CenHBEnergyCreator_registrator |
| static EnergyMethodRegistrator < scoring::methods::MembraneLipoCreator > | core::MembraneLipoCreator_registrator |
| static EnergyMethodRegistrator < scoring::methods::MembraneEnvSmoothEnergyCreator > | core::MembraneEnvSmoothEnergyCreator_registrator |
| static EnergyMethodRegistrator < scoring::methods::pHEnergyCreator > | core::pHEnergyCreator_registrator |
| static EnergyMethodRegistrator < scoring::methods::ChemicalShiftAnisotropyEnergyCreator > | core::ChemicalShiftAnisotropyEnergyCreator_registrator |
| static EnergyMethodRegistrator < scoring::methods::DipolarCouplingEnergyCreator > | core::DipolarCouplingEnergyCreator_registrator |
| static EnergyMethodRegistrator < scoring::methods::ResidualDipolarCouplingEnergyCreator > | core::ResidualDipolarCouplingEnergyCreator_registrator |
| static EnergyMethodRegistrator < scoring::methods::ResidualDipolarCouplingEnergy_RohlCreator > | core::ResidualDipolarCouplingEnergy_RohlCreator_registrator |
| static EnergyMethodRegistrator < scoring::methods::SuckerEnergyCreator > | core::SuckerEnergyCreator_registrator |
| static EnergyMethodRegistrator < scoring::methods::GaussianOverlapEnergyCreator > | core::GaussianOverlapEnergyCreator_registrator |
| static EnergyMethodRegistrator < scoring::methods::YHHPlanarityEnergyCreator > | core::YYHPlanarityEnergyCreator_registrator |
| static EnergyMethodRegistrator < pack::interaction_graph::SurfaceEnergyCreator > | core::SurfaceEnergyCreator_registrator |
| static EnergyMethodRegistrator < pack::interaction_graph::HPatchEnergyCreator > | core::HPatchEnergyCreator_registrator |
| static EnergyMethodRegistrator < scoring::methods::SymmetricLigandEnergyCreator > | core::SymmetricLigandEnergyCreator_registrator |
| static EnergyMethodRegistrator < scoring::methods::UnfoldedStateEnergyCreator > | core::UnfoldedStateEnergyCreator_registrator |
| static EnergyMethodRegistrator < scoring::methods::WaterAdductHBondEnergyCreator > | core::WaterAdductHBondEnergyCreator_registrator |
| static EnergyMethodRegistrator < scoring::methods::WaterAdductIntraEnergyCreator > | core::WaterAdductIntraEnergyCreator_registrator |
| static EnergyMethodRegistrator < scoring::packing::HolesEnergyCreator > | core::HolesEnergyCreator_registrator |
| static EnergyMethodRegistrator < scoring::packing::SurfVolEnergyCreator > | core::SurfVolEnergyCreator_registrator |
| static EnergyMethodRegistrator < scoring::packing::SurfEnergyCreator > | core::SurfEnergyCreator_registrator |
| static EnergyMethodRegistrator < scoring::rna::RG_Energy_RNACreator > | core::RG_Energy_RNACreator_registrator |
| static EnergyMethodRegistrator < scoring::rna::RNA_BulgeEnergyCreator > | core::RNA_BulgeEnergyCreator_registrator |
| static EnergyMethodRegistrator < scoring::rna::RNA_DataBackboneEnergyCreator > | core::RNA_DataBackboneEnergyCreator_registrator |
| static EnergyMethodRegistrator < scoring::rna::RNA_FullAtomStackingEnergyCreator > | core::RNA_FullAtomStackingEnergyCreator_registrator |
| static EnergyMethodRegistrator < scoring::rna::RNA_LJ_BaseEnergyCreator > | core::RNA_LJ_BaseEnergyCreator_registrator |
| static EnergyMethodRegistrator < scoring::rna::RNA_PairwiseLowResolutionEnergyCreator > | core::RNA_PairwiseLowResolutionEnergyCreator_registrator |
| static EnergyMethodRegistrator < scoring::rna::RNA_SugarCloseEnergyCreator > | core::RNA_SugarCloseEnergyCreator_registrator |
| static EnergyMethodRegistrator < scoring::rna::RNA_TorsionEnergyCreator > | core::RNA_TorsionEnergyCreator_registrator |
| static EnergyMethodRegistrator < scoring::rna::RNA_VDW_EnergyCreator > | core::RNA_VDW_EnergyCreator_registrator |
| static EnergyMethodRegistrator < scoring::rna::RNA_Mg_EnergyCreator > | core::RNA_Mg_EnergyCreator_registrator |
| static EnergyMethodRegistrator < scoring::rna::RNA_FullAtomVDW_BasePhosphateCreator > | core::RNA_FullAtomVDW_BasePhosphateCreator_registrator |
| static EnergyMethodRegistrator < scoring::rna::chemical_shift::RNA_ChemicalShiftEnergyCreator > | core::NA_ChemicalShiftEnergyCreator_registrator |
| static EnergyMethodRegistrator < scoring::sym_e::symECreator > | core::symECreator_registrator |
| static EnergyMethodRegistrator < scoring::methods::PoissonBoltzmannEnergyCreator > | core::PoissonBoltzmannEnergyCreator_registrator |
| static EnergyMethodRegistrator < scoring::saxs::FastSAXSEnergyCreator > | core::FastSAXSEnergyCreator_registrator |
| static EnergyMethodRegistrator < scoring::saxs::SAXSEnergyCreatorCEN > | core::SAXSEnergyCreatorCEN_registrator |
| static EnergyMethodRegistrator < scoring::saxs::SAXSEnergyCreatorFA > | core::SAXSEnergyCreatorFA_registrator |
| static EnergyMethodRegistrator < scoring::saxs::SAXSEnergyCreator > | core::SAXSEnergyCreator_registrator |
| static ConstraintRegistrator < core::scoring::constraints::AmbiguousConstraintCreator > | core::AmbiguousConstraintCreator_registrator |
| static ConstraintRegistrator < core::scoring::constraints::AmbiguousNMRConstraintCreator > | core::AmbiguousNMRConstraintCreator_registrator |
| static ConstraintRegistrator < core::scoring::constraints::AmbiguousNMRDistanceConstraintCreator > | core::AmbiguousNMRDistanceConstraintCreator_registrator |
| static ConstraintRegistrator < core::scoring::constraints::AngleConstraintCreator > | core::AngleConstraintCreator_registrator |
| static ConstraintRegistrator < core::scoring::constraints::AtomPairConstraintCreator > | core::AtomPairConstraintCreator_registrator |
| static ConstraintRegistrator < core::scoring::constraints::BigBinConstraintCreator > | core::BigBinConstraintCreator_registrator |
| static ConstraintRegistrator < core::scoring::constraints::CoordinateConstraintCreator > | core::CoordinateConstraintCreator_registrator |
| static ConstraintRegistrator < core::scoring::constraints::DihedralConstraintCreator > | core::DihedralConstraintCreator_registrator |
| static ConstraintRegistrator < core::scoring::constraints::DihedralPairConstraintCreator > | core::DihedralPairConstraintCreator_registrator |
| static ConstraintRegistrator < core::scoring::constraints::KofNConstraintCreator > | core::KofNConstraintCreator_registrator |
| static ConstraintRegistrator < core::scoring::constraints::LocalCoordinateConstraintCreator > | core::LocalCoordinateConstraintCreator_registrator |
| static ConstraintRegistrator < core::scoring::constraints::MultiConstraintCreator > | core::MultiConstraintCreator_registrator |
| static ConstraintRegistrator < core::scoring::constraints::FabConstraintCreator > | core::FabConstraintCreator_registrator |
| static ConstraintRegistrator < core::pack::dunbrack::DunbrackConstraintCreator > | core::DunbrackConstraintCreator_registrator |
| static ConstraintRegistrator < core::scoring::constraints::SiteConstraintCreator > | core::SiteConstraintCreator_registrator |
| static ConstraintRegistrator < core::scoring::constraints::SiteConstraintResiduesCreator > | core::SiteConstraintResiduesCreator_registrator |
| static ConstraintRegistrator < core::scoring::constraints::SequenceProfileConstraintCreator > | core::SequenceProfileConstraintCreator_registrator |
| static SilentStructRegistrator < core::io::silent::ProteinSilentStructCreator > | core::ProteinSilentStructCreator_registrator |
| static SilentStructRegistrator < core::io::silent::ProteinSilentStruct_SinglePrecCreator > | core::ProteinSilentStruct_SinglePrecCreator_registrator |
| static SilentStructRegistrator < core::io::silent::RNA_SilentStructCreator > | core::RNA_SilentStructCreator_registrator |
| static SilentStructRegistrator < core::import_pose::PDBSilentStructCreator > | core::PDBSilentStructCreator_registrator |
| static SilentStructRegistrator < core::io::silent::BinaryProteinSilentStructCreator > | core::BinaryProteinSilentStructCreator_registrator |
| static SilentStructRegistrator < core::io::silent::ScoreFileSilentStructCreator > | core::ScoreFileSilentStructCreator_registrator |
| static SilentStructRegistrator < core::io::silent::BinaryRNASilentStructCreator > | core::BinaryRNASilentStructCreator_registrator |
| static SequenceRegistrator < core::sequence::SimpleSequenceCreator > | core::SimpleSequenceCreator_registrator |
| static SequenceRegistrator < core::sequence::SequenceProfileCreator > | core::SequenceProfileCreator_registrator |
| static SequenceRegistrator < core::sequence::SequenceCouplingCreator > | core::SequenceCouplingCreator_registrator |
| static SequenceRegistrator < core::sequence::CompositeSequenceCreator > | core::CompositeSequenceCreator_registrator |
| static TaskOperationRegistrator < RestrictYSDesignCreator > | core::RestrictYSDesignCreator_registrator |
| static TaskOperationRegistrator < PreventRepackingCreator > | core::PreventRepackingCreator_registrator |
| static TaskOperationRegistrator < PreserveCBetaCreator > | core::PreserveCBetaCreator_registrator |
| static TaskOperationRegistrator < AppendRotamerSetCreator > | core::AppendRotamerSetCreator_registrator |
| static TaskOperationRegistrator < AppendRotamerCreator > | core::AppendRotamerCreator_registrator |
| static TaskOperationRegistrator < ExtraRotamersCreator > | core::ExtraRotamersCreator_registrator |
| static TaskOperationRegistrator < ExtraChiCutoffCreator > | core::ExtraChiCutoffCreator_registrator |
| static TaskOperationRegistrator < SetRotamerCouplingsCreator > | core::SetRotamerCouplingsCreator_registrator |
| static TaskOperationRegistrator < SetRotamerLinksCreator > | core::SetRotamerLinksCreator_registrator |
| static TaskOperationRegistrator < ReadResfileCreator > | core::ReadResfileCreator_registrator |
| static TaskOperationRegistrator < ReadResfileAndObeyLengthEventsCreator > | core::ReadResfileAndObeyLengthEventsCreator_registrator |
| static TaskOperationRegistrator < IncludeCurrentCreator > | core::IncludeCurrentCreator_registrator |
| static TaskOperationRegistrator < InitializeExtraRotsFromCommandlineCreator > | core::InitializeExtraRotsFromCommandlineCreator_registrator |
| static TaskOperationRegistrator < InitializeFromCommandlineCreator > | core::InitializeFromCommandlineCreator_registrator |
| static TaskOperationRegistrator < ExtraRotamersGenericCreator > | core::ExtraRotamersGenericCreator_registrator |
| static TaskOperationRegistrator < RotamerExplosionCreator > | core::RotamerExplosionCreator_registrator |
| static TaskOperationRegistrator < RestrictAbsentCanonicalAASCreator > | core::RestrictAbsentCanonicalAASCreator_registrator |
| static TaskOperationRegistrator < DisallowIfNonnativeCreator > | core::DisallowIfNonnativeCreator_registrator |
| static TaskOperationRegistrator < RestrictResidueToRepackingCreator > | core::RestrictResidueToRepackingCreator_registrator |
| static TaskOperationRegistrator < RestrictToRepackingCreator > | core::RestrictToRepackingCreator_registrator |
| static TaskOperationRegistrator < OperateOnCertainResiduesCreator > | core::OperateOnCertainResiduesCreator_registrator |
| static TaskOperationRegistrator < NoRepackDisulfidesCreator > | core::NoRepackDisulfidesCreator_registrator |
| static TaskOperationRegistrator < ReplicateTaskCreator > | core::ReplicateTaskCreator_registrator |
| static TaskOperationRegistrator < OptCysHGCreator > | core::OptCysHGCreator_registrator |
| static TaskOperationRegistrator < OptHCreator > | core::OptHCreator_registrator |
| static ResLvlTaskOperationRegistrator < RestrictToRepackingRLTCreator > | core::RestrictToRepackingRLTCreator_registrator |
| static ResLvlTaskOperationRegistrator < RestrictAbsentCanonicalAASRLTCreator > | core::RestrictAbsentCanonicalAASRLTCreator_registrator |
| static ResLvlTaskOperationRegistrator < DisallowIfNonnativeRLTCreator > | core::DisallowIfNonnativeRLTCreator_registrator |
| static ResLvlTaskOperationRegistrator < PreventRepackingRLTCreator > | core::PreventRepackingRLTCreator_registrator |
| static ResLvlTaskOperationRegistrator < AddBehaviorRLTCreator > | core::AddBehaviorRLTCreator_registrator |
| static ResFilterRegistrator < ResidueHasPropertyCreator > | core::ResidueHasPropertyCreator_registrator |
| static ResFilterRegistrator < ResidueLacksPropertyCreator > | core::ResidueLacksPropertyCreator_registrator |
| static ResFilterRegistrator < ResidueName3IsCreator > | core::ResidueName3IsCreator_registrator |
| static ResFilterRegistrator < ResidueName3IsntCreator > | core::ResidueName3IsntCreator_registrator |
| static ResFilterRegistrator < ResidueIndexIsCreator > | core::ResidueIndexIsCreator_registrator |
| static ResFilterRegistrator < ResidueIndexIsntCreator > | core::ResidueIndexIsntCreator_registrator |
| static ResFilterRegistrator < ResiduePDBIndexIsCreator > | core::ResiduePDBIndexIsCreator_registrator |
| static ResFilterRegistrator < ResiduePDBIndexIsntCreator > | core::ResiduePDBIndexIsntCreator_registrator |
| static ResFilterRegistrator < ChainIsCreator > | core::ChainIsCreator_registrator |
| static ResFilterRegistrator < ChainIsntCreator > | core::ChainIsntCreator_registrator |
| static ResFilterRegistrator < AnyResFilterCreator > | core::AnyResFilterCreator_registrator |
| static ResFilterRegistrator < AllResFilterCreator > | core::AllResFilterCreator_registrator |
| static ResFilterRegistrator < NoResFilterCreator > | core::NoResFilterCreator_registrator |
| static ResFilterRegistrator < ResidueTypeFilterCreator > | core::ResidueTypeResFilterCreator_registrator |
| static ResourceLoaderRegistrator < core::conformation::symmetry::SymmDataLoaderCreator > | core::SymmDataLoaderCreator_registrator |
| static ResourceLoaderRegistrator < core::io::silent::SilentFileLoaderCreator > | core::SilentFileLoaderCreator_registrator |
| static ResourceLoaderRegistrator < core::import_pose::PoseFromPDBLoaderCreator > | core::PoseFromPDBLoaderCreator_registrator |
| static ResourceLoaderRegistrator < core::scoring::electron_density::ElectronDensityLoaderCreator > | core::ElectronDensityLoaderCreator_registrator |
| static ResourceLoaderRegistrator < core::chemical::ResidueLoaderCreator > | core::ResidueLoaderCreator_registrator |
| static ResourceOptionsRegistrator < core::conformation::symmetry::SymmDataOptionsCreator > | core::SymmDataOptionsCreator_registrator |
| static ResourceOptionsRegistrator < core::import_pose::ImportPoseOptionsCreator > | core::ImportPoseOptionsCreator_registrator |
| static ResourceOptionsRegistrator < core::io::silent::SilentFileOptionsCreator > | core::SilentFileOptionsCreator_registrator |
| static ResourceOptionsRegistrator < core::scoring::electron_density::ElectronDensityOptionsCreator > | core::ElectronDensityOptionsCreator_registrator |
| static ResourceOptionsRegistrator < core::chemical::ResidueLoaderOptionsCreator > | core::ResiudeLoaderOptionsCreator_registrator |
options system initialization routines
Definition in file init.cc.
| typedef std::ostringstream ostringstream_t |
1.8.4