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Variables
basic::options::OptionKeys::motifs Namespace Reference

Variables

BooleanOptionKey const motifs
 
RealOptionKey const close_enough
 
IntegerOptionKey const max_depth
 
BooleanOptionKey const keep_motif_xtal_location
 
RealOptionKey const pack_score_cutoff
 
RealOptionKey const hb_score_cutoff
 
RealOptionKey const water_score_cutoff
 
RealOptionKey const pack_min_threshold
 
RealOptionKey const pack_max_threshold
 
RealOptionKey const hbond_min_threshold
 
RealOptionKey const hbond_max_threshold
 
RealOptionKey const elec_min_threshold
 
RealOptionKey const elec_max_threshold
 
RealOptionKey const duplicate_dist_cutoff
 
RealOptionKey const duplicate_angle_cutoff
 
StringOptionKey const motif_output_directory
 
BooleanOptionKey const eliminate_weak_motifs
 
RealOptionKey const duplicate_motif_cutoff
 
BooleanOptionKey const preminimize_motif_pdbs
 
BooleanOptionKey const preminimize_motif_pdbs_sconly
 
BooleanOptionKey const place_adduct_waters
 
FileVectorOptionKey const list_motifs
 
StringOptionKey const motif_filename
 
StringOptionKey const file_prefix
 
StringOptionKey const build_residue_file
 
StringOptionKey const motif_flexible_loop_file
 
StringOptionKey const residue_trim_file
 
StringOptionKey const BPData
 
FileVectorOptionKey const list_dnaconformers
 
StringVectorOptionKey const target_dna_defs
 
StringVectorOptionKey const motif_build_defs
 
IntegerVectorOptionKey const motif_build_positions
 
RealOptionKey const r1
 
RealOptionKey const r2
 
RealOptionKey const z1
 
RealOptionKey const z2
 
RealOptionKey const dtest
 
IntegerOptionKey const rotlevel
 
IntegerOptionKey const num_repacks
 
BooleanOptionKey const minimize
 
BooleanOptionKey const minimize_dna
 
BooleanOptionKey const run_motifs
 
BooleanOptionKey const expand_motifs
 
BooleanOptionKey const aromatic_motifs
 
BooleanOptionKey const dump_motifs
 
BooleanOptionKey const quick_and_dirty
 
RealOptionKey const special_rotweight
 
StringOptionKey const output_file
 
StringOptionKey const data_file
 
StringOptionKey const target_aa
 
BooleanOptionKey const flex_sugar
 
BooleanOptionKey const clear_bprots
 
IntegerOptionKey const rots2add
 
BooleanOptionKey const restrict_to_wt
 
BooleanOptionKey const rerun_motifsearch
 
BooleanOptionKey const no_rotamer_bump
 
RealOptionKey const ligand_motif_sphere
 

Variable Documentation

BooleanOptionKey const basic::options::OptionKeys::motifs::aromatic_motifs

Referenced by add_rosetta_options_10().

StringOptionKey const basic::options::OptionKeys::motifs::BPData

Referenced by add_rosetta_options_10().

StringOptionKey const basic::options::OptionKeys::motifs::build_residue_file
BooleanOptionKey const basic::options::OptionKeys::motifs::clear_bprots

Referenced by add_rosetta_options_10().

RealOptionKey const basic::options::OptionKeys::motifs::close_enough

Referenced by add_rosetta_options_10().

StringOptionKey const basic::options::OptionKeys::motifs::data_file
RealOptionKey const basic::options::OptionKeys::motifs::dtest

Referenced by add_rosetta_options_10().

BooleanOptionKey const basic::options::OptionKeys::motifs::dump_motifs

Referenced by add_rosetta_options_10().

RealOptionKey const basic::options::OptionKeys::motifs::duplicate_angle_cutoff

Referenced by add_rosetta_options_10().

RealOptionKey const basic::options::OptionKeys::motifs::duplicate_dist_cutoff

Referenced by add_rosetta_options_10().

RealOptionKey const basic::options::OptionKeys::motifs::duplicate_motif_cutoff

Referenced by add_rosetta_options_10().

RealOptionKey const basic::options::OptionKeys::motifs::elec_max_threshold
RealOptionKey const basic::options::OptionKeys::motifs::elec_min_threshold
BooleanOptionKey const basic::options::OptionKeys::motifs::eliminate_weak_motifs

Referenced by add_rosetta_options_10().

BooleanOptionKey const basic::options::OptionKeys::motifs::expand_motifs

Referenced by add_rosetta_options_10().

StringOptionKey const basic::options::OptionKeys::motifs::file_prefix

Referenced by add_rosetta_options_10().

BooleanOptionKey const basic::options::OptionKeys::motifs::flex_sugar

Referenced by add_rosetta_options_10().

RealOptionKey const basic::options::OptionKeys::motifs::hb_score_cutoff

Referenced by add_rosetta_options_10().

RealOptionKey const basic::options::OptionKeys::motifs::hbond_max_threshold
RealOptionKey const basic::options::OptionKeys::motifs::hbond_min_threshold
BooleanOptionKey const basic::options::OptionKeys::motifs::keep_motif_xtal_location

Referenced by add_rosetta_options_10().

RealOptionKey const basic::options::OptionKeys::motifs::ligand_motif_sphere

Referenced by add_rosetta_options_10().

FileVectorOptionKey const basic::options::OptionKeys::motifs::list_dnaconformers

Referenced by add_rosetta_options_10().

FileVectorOptionKey const basic::options::OptionKeys::motifs::list_motifs

Referenced by add_rosetta_options_10().

IntegerOptionKey const basic::options::OptionKeys::motifs::max_depth

Referenced by add_rosetta_options_10().

BooleanOptionKey const basic::options::OptionKeys::motifs::minimize

Referenced by add_rosetta_options_10().

BooleanOptionKey const basic::options::OptionKeys::motifs::minimize_dna

Referenced by add_rosetta_options_10().

StringVectorOptionKey const basic::options::OptionKeys::motifs::motif_build_defs

Referenced by add_rosetta_options_10().

IntegerVectorOptionKey const basic::options::OptionKeys::motifs::motif_build_positions

Referenced by add_rosetta_options_10().

StringOptionKey const basic::options::OptionKeys::motifs::motif_filename
StringOptionKey const basic::options::OptionKeys::motifs::motif_flexible_loop_file
StringOptionKey const basic::options::OptionKeys::motifs::motif_output_directory

Referenced by add_rosetta_options_10().

BooleanOptionKey const basic::options::OptionKeys::motifs::motifs

Referenced by add_rosetta_options_10().

BooleanOptionKey const basic::options::OptionKeys::motifs::no_rotamer_bump

Referenced by add_rosetta_options_10().

IntegerOptionKey const basic::options::OptionKeys::motifs::num_repacks

Referenced by add_rosetta_options_10().

StringOptionKey const basic::options::OptionKeys::motifs::output_file

Referenced by add_rosetta_options_10(), and main().

RealOptionKey const basic::options::OptionKeys::motifs::pack_max_threshold
RealOptionKey const basic::options::OptionKeys::motifs::pack_min_threshold
RealOptionKey const basic::options::OptionKeys::motifs::pack_score_cutoff

Referenced by add_rosetta_options_10().

BooleanOptionKey const basic::options::OptionKeys::motifs::place_adduct_waters

Referenced by add_rosetta_options_10().

BooleanOptionKey const basic::options::OptionKeys::motifs::preminimize_motif_pdbs

Referenced by add_rosetta_options_10().

BooleanOptionKey const basic::options::OptionKeys::motifs::preminimize_motif_pdbs_sconly

Referenced by add_rosetta_options_10().

BooleanOptionKey const basic::options::OptionKeys::motifs::quick_and_dirty

Referenced by add_rosetta_options_10().

RealOptionKey const basic::options::OptionKeys::motifs::r1
RealOptionKey const basic::options::OptionKeys::motifs::r2
BooleanOptionKey const basic::options::OptionKeys::motifs::rerun_motifsearch

Referenced by add_rosetta_options_10().

StringOptionKey const basic::options::OptionKeys::motifs::residue_trim_file
BooleanOptionKey const basic::options::OptionKeys::motifs::restrict_to_wt

Referenced by add_rosetta_options_10().

IntegerOptionKey const basic::options::OptionKeys::motifs::rotlevel

Referenced by add_rosetta_options_10().

IntegerOptionKey const basic::options::OptionKeys::motifs::rots2add

Referenced by add_rosetta_options_10().

BooleanOptionKey const basic::options::OptionKeys::motifs::run_motifs

Referenced by add_rosetta_options_10().

RealOptionKey const basic::options::OptionKeys::motifs::special_rotweight

Referenced by add_rosetta_options_10().

StringOptionKey const basic::options::OptionKeys::motifs::target_aa
StringVectorOptionKey const basic::options::OptionKeys::motifs::target_dna_defs

Referenced by add_rosetta_options_10().

RealOptionKey const basic::options::OptionKeys::motifs::water_score_cutoff

Referenced by add_rosetta_options_10().

RealOptionKey const basic::options::OptionKeys::motifs::z1
RealOptionKey const basic::options::OptionKeys::motifs::z2