Rosetta  2019.47
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in Namespace Reference

Namespaces

 dbms
 
 file
 
 path
 
 rdf
 

Functions

BooleanOptionKey const in ("in")
 
FileVectorOptionKey const fconfig ("in:fconfig")
 
BooleanOptionKey const no_fconfig ("in:no_fconfig")
 
BooleanOptionKey const skip_classic_cart_setup ("in:skip_classic_cart_setup")
 
BooleanOptionKey const skip_new_cart_setup ("in:skip_new_cart_setup")
 
StringOptionKey const Ntermini ("in:Ntermini")
 
StringOptionKey const Ctermini ("in:Ctermini")
 
BooleanOptionKey const use_truncated_termini ("in:use_truncated_termini")
 
BooleanOptionKey const ignore_unrecognized_res ("in:ignore_unrecognized_res")
 
BooleanOptionKey const ignore_waters ("in:ignore_waters")
 
StringOptionKey const water_type_if_unspecified ("in:water_type_if_unspecified")
 
BooleanOptionKey const guarantee_no_DNA ("in:guarantee_no_DNA")
 
BooleanOptionKey const add_orbitals ("in:add_orbitals")
 
BooleanOptionKey const show_all_fixes ("in:show_all_fixes")
 
BooleanOptionKey const include_sugars ("in:include_sugars")
 
BooleanOptionKey const include_lipids ("in:include_lipids")
 
BooleanOptionKey const include_surfaces ("in:include_surfaces")
 
BooleanOptionKey const read_only_ATOM_entries ("in:read_only_ATOM_entries")
 
BooleanOptionKey const auto_detect_glycan_connections ("in:auto_detect_glycan_connections")
 
RealOptionKey const max_bond_length ("in:max_bond_length")
 
RealOptionKey const min_bond_length ("in:min_bond_length")
 
RealOptionKey const glycan_virtual_offset ("in:glycan_virtual_offset")
 
BooleanOptionKey const membrane ("in:membrane")
 
BooleanOptionKey const remember_unrecognized_res ("in:remember_unrecognized_res")
 
BooleanOptionKey const remember_unrecognized_water ("in:remember_unrecognized_water")
 
BooleanOptionKey const preserve_crystinfo ("in:preserve_crystinfo")
 
BooleanOptionKey const detect_oops ("in:detect_oops")
 
BooleanOptionKey const detect_disulf ("in:detect_disulf")
 
RealOptionKey const detect_disulf_tolerance ("in:detect_disulf_tolerance")
 
BooleanOptionKey const constraints_from_link_records ("in:constraints_from_link_records")
 
BooleanOptionKey const auto_setup_metals ("in:auto_setup_metals")
 
BooleanOptionKey const prevent_auto_setup_metal_bb_variants ("in:prevent_auto_setup_metal_bb_variants")
 
RealOptionKey const metals_detection_LJ_multiplier ("in:metals_detection_LJ_multiplier")
 
RealOptionKey const metals_distance_constraint_multiplier ("in:metals_distance_constraint_multiplier")
 
RealOptionKey const metals_angle_constraint_multiplier ("in:metals_angle_constraint_multiplier")
 
StringVectorOptionKey const name3_property_codes ("in:name3_property_codes")
 
StringVectorOptionKey const alternate_3_letter_codes ("in:alternate_3_letter_codes")
 
BooleanOptionKey const maintain_links ("in:maintain_links")
 
FileOptionKey const fix_disulf ("in:fix_disulf")
 
BooleanOptionKey const missing_density_to_jump ("in:missing_density_to_jump")
 
IntegerVectorOptionKey const target_residues ("in:target_residues")
 
IntegerVectorOptionKey const replonly_residues ("in:replonly_residues")
 
BooleanOptionKey const replonly_loops ("in:replonly_loops")
 
BooleanOptionKey const use_database ("in:use_database")
 
StringVectorOptionKey const select_structures_from_database ("in:select_structures_from_database")
 

Function Documentation

BooleanOptionKey const in::add_orbitals ( "in:add_orbitals"  )
StringVectorOptionKey const in::alternate_3_letter_codes ( "in:alternate_3_letter_codes"  )

Referenced by basic::options::process().

BooleanOptionKey const in::auto_detect_glycan_connections ( "in:auto_detect_glycan_connections"  )
BooleanOptionKey const in::auto_setup_metals ( "in:auto_setup_metals"  )
BooleanOptionKey const in::constraints_from_link_records ( "in:constraints_from_link_records"  )
StringOptionKey const in::Ctermini ( "in:Ctermini"  )
BooleanOptionKey const in::detect_disulf ( "in:detect_disulf"  )
RealOptionKey const in::detect_disulf_tolerance ( "in:detect_disulf_tolerance"  )
BooleanOptionKey const in::detect_oops ( "in:detect_oops"  )
FileVectorOptionKey const in::fconfig ( "in:fconfig"  )
FileOptionKey const in::fix_disulf ( "in:fix_disulf"  )
RealOptionKey const in::glycan_virtual_offset ( "in:glycan_virtual_offset"  )
BooleanOptionKey const in::guarantee_no_DNA ( "in:guarantee_no_DNA"  )
BooleanOptionKey const in::ignore_unrecognized_res ( "in:ignore_unrecognized_res"  )

Referenced by main().

BooleanOptionKey const in::ignore_waters ( "in:ignore_waters"  )
BooleanOptionKey const in::in ( "in"  )
BooleanOptionKey const in::include_lipids ( "in:include_lipids"  )
BooleanOptionKey const in::include_sugars ( "in:include_sugars"  )
BooleanOptionKey const in::include_surfaces ( "in:include_surfaces"  )
BooleanOptionKey const in::maintain_links ( "in:maintain_links"  )
RealOptionKey const in::max_bond_length ( "in:max_bond_length"  )
BooleanOptionKey const in::membrane ( "in:membrane"  )
RealOptionKey const in::metals_angle_constraint_multiplier ( "in:metals_angle_constraint_multiplier"  )
RealOptionKey const in::metals_detection_LJ_multiplier ( "in:metals_detection_LJ_multiplier"  )
RealOptionKey const in::metals_distance_constraint_multiplier ( "in:metals_distance_constraint_multiplier"  )
RealOptionKey const in::min_bond_length ( "in:min_bond_length"  )
BooleanOptionKey const in::missing_density_to_jump ( "in:missing_density_to_jump"  )

Referenced by main().

StringVectorOptionKey const in::name3_property_codes ( "in:name3_property_codes"  )
BooleanOptionKey const in::no_fconfig ( "in:no_fconfig"  )
StringOptionKey const in::Ntermini ( "in:Ntermini"  )
BooleanOptionKey const in::preserve_crystinfo ( "in:preserve_crystinfo"  )

Referenced by basic::options::process().

BooleanOptionKey const in::prevent_auto_setup_metal_bb_variants ( "in:prevent_auto_setup_metal_bb_variants"  )
BooleanOptionKey const in::read_only_ATOM_entries ( "in:read_only_ATOM_entries"  )
BooleanOptionKey const in::remember_unrecognized_res ( "in:remember_unrecognized_res"  )
BooleanOptionKey const in::remember_unrecognized_water ( "in:remember_unrecognized_water"  )
BooleanOptionKey const in::replonly_loops ( "in:replonly_loops"  )
IntegerVectorOptionKey const in::replonly_residues ( "in:replonly_residues"  )
StringVectorOptionKey const in::select_structures_from_database ( "in:select_structures_from_database"  )
BooleanOptionKey const in::show_all_fixes ( "in:show_all_fixes"  )
BooleanOptionKey const in::skip_classic_cart_setup ( "in:skip_classic_cart_setup"  )
BooleanOptionKey const in::skip_new_cart_setup ( "in:skip_new_cart_setup"  )
IntegerVectorOptionKey const in::target_residues ( "in:target_residues"  )

Referenced by main().

BooleanOptionKey const in::use_database ( "in:use_database"  )
BooleanOptionKey const in::use_truncated_termini ( "in:use_truncated_termini"  )
StringOptionKey const in::water_type_if_unspecified ( "in:water_type_if_unspecified"  )