basic::options::OptionKeys::abinitio Namespace Reference

Namespaces
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Variables
BooleanOptionKey const	abinitio
BooleanOptionKey const	membrane
BooleanOptionKey const	use_loophash_filter
RealOptionKey const	loophash_filter_acceptance_rate
FileOptionKey const	kill_hairpins
RealOptionKey const	kill_hairpins_frequency
BooleanOptionKey const	smooth_cycles_only
BooleanOptionKey const	relax
BooleanOptionKey const	final_clean_relax
BooleanOptionKey const	fastrelax
BooleanOptionKey const	multifastrelax
BooleanOptionKey const	debug
BooleanOptionKey const	clear_pose_cache
BooleanOptionKey const	explicit_pdb_debug
BooleanOptionKey const	use_filters
BooleanOptionKey const	use_trRosetta_constraints
RealOptionKey const	increase_cycles
IntegerOptionKey const	number_3mer_frags
IntegerOptionKey const	number_9mer_frags
RealOptionKey const	temperature
RealOptionKey const	rg_reweight
RealOptionKey const	rsd_wt_helix
RealOptionKey const	rsd_wt_strand
RealOptionKey const	rsd_wt_loop
BooleanOptionKey const	skip_convergence_check
FileVectorOptionKey const	stage1_patch
FileVectorOptionKey const	stage2_patch
FileVectorOptionKey const	stage3a_patch
FileVectorOptionKey const	stage3b_patch
FileVectorOptionKey const	stage4_patch
FileVectorOptionKey const	stage5_patch
BooleanOptionKey const	steal_3mers
BooleanOptionKey const	steal_9mers
BooleanOptionKey const	no_write_failures
BooleanOptionKey const	relax_failures
BooleanOptionKey const	relax_with_jumps
BooleanOptionKey const	process_store
IntegerVectorOptionKey const	fix_residues_to_native
BooleanOptionKey const	return_full_atom
BooleanOptionKey const	detect_disulfide_before_relax
BooleanOptionKey const	close_loops
BooleanOptionKey const	bGDT
BooleanOptionKey const	dump_frags
BooleanOptionKey const	jdist_rerun
RealOptionKey const	perturb
BooleanOptionKey const	rerun
IntegerVectorOptionKey const	rmsd_residues
BooleanOptionKey const	start_native
BooleanOptionKey const	cyclic_peptide
BooleanOptionKey const	debug_structures
FileOptionKey const	log_frags
BooleanOptionKey const	only_stage1
RealOptionKey const	end_bias
BooleanOptionKey const	apply_end_bias
IntegerOptionKey const	symmetry_residue
RealOptionKey const	vdw_weight_stage1
BooleanOptionKey const	override_vdw_all_stages
IntegerVectorOptionKey const	recover_low_in_stages
IntegerVectorOptionKey const	skip_stages
BooleanOptionKey const	close_chbrk
BooleanOptionKey const	include_stage5
BooleanOptionKey const	close_loops_by_idealizing
BooleanOptionKey const	optimize_cutpoints_using_kic
IntegerOptionKey const	optimize_cutpoints_margin

Variable Documentation

BooleanOptionKey const basic::options::OptionKeys::abinitio::abinitio

Referenced by add_rosetta_options_4().

BooleanOptionKey const basic::options::OptionKeys::abinitio::apply_end_bias

Referenced by add_rosetta_options_5().

BooleanOptionKey const basic::options::OptionKeys::abinitio::bGDT

Referenced by add_rosetta_options_5().

BooleanOptionKey const basic::options::OptionKeys::abinitio::clear_pose_cache

Referenced by add_rosetta_options_5().

BooleanOptionKey const basic::options::OptionKeys::abinitio::close_chbrk

Referenced by add_rosetta_options_5().

BooleanOptionKey const basic::options::OptionKeys::abinitio::close_loops

Referenced by add_rosetta_options_5().

BooleanOptionKey const basic::options::OptionKeys::abinitio::close_loops_by_idealizing

Referenced by add_rosetta_options_5().

BooleanOptionKey const basic::options::OptionKeys::abinitio::cyclic_peptide

Referenced by add_rosetta_options_5().

BooleanOptionKey const basic::options::OptionKeys::abinitio::debug

Referenced by add_rosetta_options_5().

BooleanOptionKey const basic::options::OptionKeys::abinitio::debug_structures

Referenced by add_rosetta_options_5().

BooleanOptionKey const basic::options::OptionKeys::abinitio::detect_disulfide_before_relax

Referenced by add_rosetta_options_5().

BooleanOptionKey const basic::options::OptionKeys::abinitio::dump_frags

Referenced by add_rosetta_options_5().

RealOptionKey const basic::options::OptionKeys::abinitio::end_bias

Referenced by add_rosetta_options_5().

BooleanOptionKey const basic::options::OptionKeys::abinitio::explicit_pdb_debug

Referenced by add_rosetta_options_5().

BooleanOptionKey const basic::options::OptionKeys::abinitio::fastrelax

Referenced by add_rosetta_options_5(), and compute_folding_energies().

BooleanOptionKey const basic::options::OptionKeys::abinitio::final_clean_relax

Referenced by add_rosetta_options_5().

IntegerVectorOptionKey const basic::options::OptionKeys::abinitio::fix_residues_to_native

Referenced by add_rosetta_options_5().

BooleanOptionKey const basic::options::OptionKeys::abinitio::include_stage5

Referenced by add_rosetta_options_5().

RealOptionKey const basic::options::OptionKeys::abinitio::increase_cycles

Referenced by add_rosetta_options_5().

BooleanOptionKey const basic::options::OptionKeys::abinitio::jdist_rerun

Referenced by add_rosetta_options_5().

FileOptionKey const basic::options::OptionKeys::abinitio::kill_hairpins

Referenced by add_rosetta_options_4().

RealOptionKey const basic::options::OptionKeys::abinitio::kill_hairpins_frequency

Referenced by add_rosetta_options_4().

FileOptionKey const basic::options::OptionKeys::abinitio::log_frags

Referenced by add_rosetta_options_5().

RealOptionKey const basic::options::OptionKeys::abinitio::loophash_filter_acceptance_rate

Referenced by add_rosetta_options_4().

BooleanOptionKey const basic::options::OptionKeys::abinitio::membrane

Referenced by add_rosetta_options_4(), ViewMembraneProteinMover::apply(), MPDomainAssembly::apply(), helix_from_sequence(), main(), my_main(), and read_membrane().

BooleanOptionKey const basic::options::OptionKeys::abinitio::multifastrelax

Referenced by add_rosetta_options_5().

BooleanOptionKey const basic::options::OptionKeys::abinitio::no_write_failures

Referenced by add_rosetta_options_5().

IntegerOptionKey const basic::options::OptionKeys::abinitio::number_3mer_frags

Referenced by add_rosetta_options_5().

IntegerOptionKey const basic::options::OptionKeys::abinitio::number_9mer_frags

Referenced by add_rosetta_options_5().

BooleanOptionKey const basic::options::OptionKeys::abinitio::only_stage1

Referenced by add_rosetta_options_5().

IntegerOptionKey const basic::options::OptionKeys::abinitio::optimize_cutpoints_margin

Referenced by add_rosetta_options_5().

BooleanOptionKey const basic::options::OptionKeys::abinitio::optimize_cutpoints_using_kic

Referenced by add_rosetta_options_5().

BooleanOptionKey const basic::options::OptionKeys::abinitio::override_vdw_all_stages

Referenced by add_rosetta_options_5().

RealOptionKey const basic::options::OptionKeys::abinitio::perturb

Referenced by add_rosetta_options_5().

BooleanOptionKey const basic::options::OptionKeys::abinitio::process_store

Referenced by add_rosetta_options_5().

IntegerVectorOptionKey const basic::options::OptionKeys::abinitio::recover_low_in_stages

Referenced by add_rosetta_options_5().

BooleanOptionKey const basic::options::OptionKeys::abinitio::relax

Referenced by add_rosetta_options_4(), helix_from_sequence(), main(), relax_with_restraints_on_constres(), FastRelaxPerformanceBenchmark::setup_for_mmstd(), FastRelaxPerformanceBenchmark::setup_for_sc12he(), FastRelaxPerformanceBenchmark::setup_for_sc12sp2(), FastRelaxPerformanceBenchmark::setup_for_score12(), and FastRelaxPerformanceBenchmark::setup_for_sp2hecart().

BooleanOptionKey const basic::options::OptionKeys::abinitio::relax_failures

Referenced by add_rosetta_options_5().

BooleanOptionKey const basic::options::OptionKeys::abinitio::relax_with_jumps

Referenced by add_rosetta_options_5().

BooleanOptionKey const basic::options::OptionKeys::abinitio::rerun

Referenced by add_rosetta_options_5().

BooleanOptionKey const basic::options::OptionKeys::abinitio::return_full_atom

Referenced by add_rosetta_options_5().

RealOptionKey const basic::options::OptionKeys::abinitio::rg_reweight

Referenced by add_rosetta_options_5().

IntegerVectorOptionKey const basic::options::OptionKeys::abinitio::rmsd_residues

Referenced by add_rosetta_options_5(), RNA_ScoreMover::apply(), drrafter_error_estimation(), and main().

RealOptionKey const basic::options::OptionKeys::abinitio::rsd_wt_helix

Referenced by add_rosetta_options_5().

RealOptionKey const basic::options::OptionKeys::abinitio::rsd_wt_loop

Referenced by add_rosetta_options_5().

RealOptionKey const basic::options::OptionKeys::abinitio::rsd_wt_strand

Referenced by add_rosetta_options_5().

BooleanOptionKey const basic::options::OptionKeys::abinitio::skip_convergence_check

Referenced by add_rosetta_options_5().

IntegerVectorOptionKey const basic::options::OptionKeys::abinitio::skip_stages

Referenced by add_rosetta_options_5().

BooleanOptionKey const basic::options::OptionKeys::abinitio::smooth_cycles_only

Referenced by add_rosetta_options_4().

FileVectorOptionKey const basic::options::OptionKeys::abinitio::stage1_patch

Referenced by add_rosetta_options_5().

FileVectorOptionKey const basic::options::OptionKeys::abinitio::stage2_patch

Referenced by add_rosetta_options_5().

FileVectorOptionKey const basic::options::OptionKeys::abinitio::stage3a_patch

Referenced by add_rosetta_options_5().

FileVectorOptionKey const basic::options::OptionKeys::abinitio::stage3b_patch

Referenced by add_rosetta_options_5().

FileVectorOptionKey const basic::options::OptionKeys::abinitio::stage4_patch

Referenced by add_rosetta_options_5().

FileVectorOptionKey const basic::options::OptionKeys::abinitio::stage5_patch

Referenced by add_rosetta_options_5().

BooleanOptionKey const basic::options::OptionKeys::abinitio::start_native

Referenced by add_rosetta_options_5().

BooleanOptionKey const basic::options::OptionKeys::abinitio::steal_3mers

Referenced by add_rosetta_options_5().

BooleanOptionKey const basic::options::OptionKeys::abinitio::steal_9mers

Referenced by add_rosetta_options_5().

IntegerOptionKey const basic::options::OptionKeys::abinitio::symmetry_residue

Referenced by add_rosetta_options_5().

RealOptionKey const basic::options::OptionKeys::abinitio::temperature

Referenced by add_rosetta_options_5().

BooleanOptionKey const basic::options::OptionKeys::abinitio::use_filters

Referenced by add_rosetta_options_5().

BooleanOptionKey const basic::options::OptionKeys::abinitio::use_loophash_filter

Referenced by add_rosetta_options_4().

BooleanOptionKey const basic::options::OptionKeys::abinitio::use_trRosetta_constraints

Referenced by add_rosetta_options_5().

RealOptionKey const basic::options::OptionKeys::abinitio::vdw_weight_stage1

Referenced by add_rosetta_options_5().