- s -

s() : basic::options::OptionKeys::in::file , in::file
s1() : stepwise
s2() : stepwise
safely_create_singleton() : utility::thread
safely_prepare_statement() : basic::database
safely_read_from_database() : basic::database
safely_write_to_database() : basic::database
same_ignoring_spaces() : utility
sample_beta() : stepwise::protein
sample_both_sugar_base_rotamer() : stepwise::rna
sample_omega_at_pre_prolines() : basic::options::OptionKeys::loops , loops
sample_ONLY_multiple_virtual_sugar() : stepwise::rna
sample_over_loops() : remodel::staged_sampling
sample_res() : basic::options::OptionKeys::full_model , full_model
sample_weight_file() : basic::options::OptionKeys::lh , lh
sample_zero_probs_at() : antibody::design , basic::options::OptionKeys::antibody::design
sampler_allow_syn_pyrimidine() : stepwise::rna
sampler_assert_no_virt_sugar_sampling() : stepwise::rna
sampler_cluster_rmsd() : stepwise::rna
sampler_extra_beta_rotamer() : stepwise::rna
sampler_extra_chi_rotamer() : stepwise::rna
sampler_extra_epsilon_rotamer() : stepwise::rna
sampler_include_torsion_value_in_tag() : stepwise::rna
sampler_max_centroid_distance() : stepwise::rna
sampler_native_rmsd_screen() : stepwise::rna
sampler_native_screen_rmsd_cutoff() : stepwise::rna
sampler_num_pose_kept() : stepwise::rna
sampler_perform_o2prime_pack() : stepwise::rna
sampler_perform_phosphate_pack() : stepwise::rna
sampler_try_sugar_instantiation() : stepwise::rna
sampling() : basic::options::OptionKeys::canonical_sampling::sampling , canonical_sampling::sampling
sampling_prob() : rigid
sandbox() : basic::options::OptionKeys::lh , lh
sanitize() : basic::options::OptionKeys::cm::sanitize , cm::sanitize
sasa() : AnchoredDesign::filters , basic::options::OptionKeys::AnchoredDesign::filters , basic::options::OptionKeys::mh::filter , mh::filter , sasa
sasa_burial_cutoff() : basic::options::OptionKeys::bunsat_calc2 , bunsat_calc2
sasa_calculator_probe_radius() : pose_metrics
SASAfilter() : basic::options::OptionKeys::chemically_conjugated_docking , chemically_conjugated_docking
save_all_pdbs() : pepspec
save_loops_only() : basic::options::OptionKeys::canonical_sampling::sampling , canonical_sampling::sampling
save_low_pdbs() : pepspec
save_top() : remodel
saxs() : score::saxs
sbisect() : numeric::kinematic_closure
sc() : basic::options::OptionKeys::canonical_sampling::probabilities , canonical_sampling::probabilities
sc_bb() : orbitals
sc_cst_maxdist() : relax
sc_min() : antibody , basic::options::OptionKeys::antibody , basic::options::OptionKeys::casp , basic::options::OptionKeys::docking , casp , docking
sc_min_only() : basic::options::OptionKeys::ddg , ddg
sc_min_res() : basic::options::OptionKeys::docking , docking
sc_only() : basic::options::OptionKeys::hotspot , hotspot
sc_prob_perturbcurrent() : basic::options::OptionKeys::canonical_sampling::probabilities , canonical_sampling::probabilities
sc_prob_uniform() : basic::options::OptionKeys::canonical_sampling::probabilities , canonical_sampling::probabilities
sc_prob_withinrot() : basic::options::OptionKeys::canonical_sampling::probabilities , canonical_sampling::probabilities
sc_sc_bump_cutoff() : basic::options::OptionKeys::enzdes , enzdes
sc_scaling() : basic::options::OptionKeys::edensity , edensity , patterson
sc_stats() : orbitals
scaffold_active_site_residues() : basic::options::OptionKeys::match , match
scaffold_active_site_residues_for_geomcsts() : basic::options::OptionKeys::match , match
scalar_product() : numeric
scale_d() : basic::options::OptionKeys::optimization , optimization
scale_normalmode_dampen() : basic::options::OptionKeys::optimization , optimization
scale_rb() : basic::options::OptionKeys::optimization , optimization
scale_rbangle() : basic::options::OptionKeys::optimization , optimization
scale_theta() : basic::options::OptionKeys::optimization , optimization
scattach_res_files() : smhybrid
scipy() : numeric::kinematic_closure
scmin_cartesian() : basic::options::OptionKeys::optimization , optimization
scmin_nonideal() : basic::options::OptionKeys::optimization , optimization
scmove() : rot_anl
score() : AnchoredDesign::filters , basic::options::OptionKeys::AnchoredDesign::filters , basic::options::OptionKeys::corrections::score , basic::options::OptionKeys::mh::score , corrections::score , mh::score , out::path , rigid , score
score12prime() : basic::options::OptionKeys::corrections::score , corrections::score
score_across_chains_only() : basic::options::OptionKeys::mh , mh
score_cut_fl() : basic::options::OptionKeys::boinc , boinc
score_cut_pct() : basic::options::OptionKeys::boinc , boinc
score_cut_smart_throttle() : basic::options::OptionKeys::boinc , boinc
score_diff_cut() : basic::options::OptionKeys::cluster , cluster , stepwise::protein
score_exclude_res() : basic::options::OptionKeys::evaluation , evaluation
score_filter() : basic::options::OptionKeys::flexPepDocking , flexPepDocking
score_filter_cutoff() : basic::options::OptionKeys::loops , loops
score_function() : basic::options::OptionKeys::dna::specificity , dna::specificity
score_only() : out::file , run
score_output_silent() : basic::options::OptionKeys::frags , frags
score_pdbs() : basic::options::OptionKeys::mh , mh
score_pose_cutpoint_variants() : score
score_sliding_window_context() : basic::options::OptionKeys::edensity , edensity
score_sscore_maxloop() : basic::options::OptionKeys::evaluation , evaluation
score_sscore_short_helix() : basic::options::OptionKeys::evaluation , evaluation
score_symm_complex() : basic::options::OptionKeys::edensity , edensity
score_tol() : rot_anl
score_type() : basic::options::OptionKeys::blivens , blivens
score_with_rmsd() : basic::options::OptionKeys::evaluation , evaluation
scorecut() : out
scored_frag_cycles() : basic::options::OptionKeys::loops , loops
scorefile() : out::file
scorefilter() : basic::options::OptionKeys::chemically_conjugated_docking , chemically_conjugated_docking
scoring() : basic::options::OptionKeys::frags::scoring , frags::scoring
scpn() : numeric::kinematic_closure::radians , numeric::kinematic_closure
scratch() : out::path
screening_job_file() : basic::options::OptionKeys::in::file , in::file
screening_list() : basic::options::OptionKeys::in::file , in::file
script() : basic::options::OptionKeys::els , els , relax
script_max_accept() : relax
script_vars() : parser
sec() : numeric
secmatch_Ecutoff() : basic::options::OptionKeys::enzdes , enzdes
secondary_seqdep_refene_fname() : score
secondary_structure_file() : basic::options::OptionKeys::DenovoProteinDesign , DenovoProteinDesign
seed_offset() : run
segment_file() : rdc
segment_scoring_mode() : rdc
select_best_loop_from() : basic::options::OptionKeys::loops , loops
select_residues_file() : rdc
select_structures_from_database() : basic::options::OptionKeys::in , in
selecting_rule() : basic::options::OptionKeys::frags::picking , frags::picking
selecting_scorefxn() : basic::options::OptionKeys::frags::picking , frags::picking
semiex_water_burial_cutoff() : pose_metrics
send_char_to_node() : utility
send_data_to_head_node() : basic::message_listening
send_double_to_node() : utility
send_doubles_to_node() : utility
send_integer_to_node() : utility
send_integers_to_node() : utility
send_string_to_node() : utility
sep_bb_ss() : basic::options::OptionKeys::in::rdf , in::rdf
SEP_score_scalling() : abinitio , basic::options::OptionKeys::abinitio
sep_switch_accelerate() : basic::options::OptionKeys::jumps , jumps
separate_db_per_mpi_process() : basic::options::OptionKeys::inout::dbms , inout::dbms
seq() : basic::options::OptionKeys::in::file , in::file
seq_align() : pepspec
seq_score() : basic::options::OptionKeys::cm , cm
seq_sep_stages() : basic::options::OptionKeys::fold_cst , fold_cst
seqdep_refene_fname() : score
seqsep() : basic::options::OptionKeys::mh::filter , mh::filter
seqsim_E() : basic::options::OptionKeys::frags , frags
seqsim_H() : basic::options::OptionKeys::frags , frags
seqsim_L() : basic::options::OptionKeys::frags , frags
sequence() : relax
sequence_file() : relax
sequence_recovery() : basic::options::OptionKeys::mh , mh
sequence_separation() : rigid
sequential() : basic::options::OptionKeys::casp , casp , utility::keys
serialize() : numeric
series() : run
server_port() : rbe
server_url() : rbe
set_anchor_at_closest_point() : basic::options::OptionKeys::fold_and_dock , fold_and_dock
set_atom_properties() : basic::options::OptionKeys::chemical , chemical
set_boolean_option() : basic::options
set_boolean_vector_option() : basic::options
set_cache_size() : basic::database
set_default_final_channel() : basic
set_file_option() : basic::options
set_file_vector_option() : basic::options
set_integer_option() : basic::options
set_integer_vector_option() : basic::options
set_main_exit_callback() : utility
set_new_final_channel() : basic
set_option() : basic::options
set_origin() : basic::options::OptionKeys::fingerprint , fingerprint
set_pddf_filter() : basic::options::OptionKeys::filters , filters
set_real_option() : basic::options
set_real_vector_option() : basic::options
set_saxs_filter() : basic::options::OptionKeys::filters , filters
set_string_option() : basic::options
set_string_vector_option() : basic::options
set_weights() : score
setup() : basic::options::OptionKeys::broker , broker
setup_tag2string() : basic
sewing() : sewing
sf() : out
sformat_idxof() : numeric::random
share_data() : basic::options::OptionKeys::ms , ms
shear_moves() : basic::options::OptionKeys::docking::ligand , docking::ligand
shear_on() : basic::options::OptionKeys::FloppyTail , FloppyTail
sheet_edge_pred() : abinitio , basic::options::OptionKeys::abinitio
sheets() : basic::options::OptionKeys::jumps , jumps
shift_sog_func() : basic::options::OptionKeys::james , james
short_frag_cycles() : basic::options::OptionKeys::loops , loops
short_loop_len() : abinitio::star , basic::options::OptionKeys::abinitio::star
short_range_seqsep() : rigid
short_tail() : basic::options::OptionKeys::FloppyTail::short_tail , FloppyTail::short_tail
short_tail_fraction() : basic::options::OptionKeys::FloppyTail::short_tail , FloppyTail::short_tail
short_tail_off() : basic::options::OptionKeys::FloppyTail::short_tail , FloppyTail::short_tail
shorten_long_terminal_loop() : basic::options::OptionKeys::loops , loops
shortest_wu() : basic::options::OptionKeys::els , els
shortrelax() : basic::options::OptionKeys::loops , loops
show_accessed_options() : out
show_accessed_options_T() : utility::options
show_all_fixes() : basic::options::OptionKeys::in , in
show_extended() : AnchoredDesign , basic::options::OptionKeys::AnchoredDesign
show_simulation_in_pymol() : run
show_time() : basic
show_time_on_cerr() : basic
SHRINK_FACTOR() : basic
shrink_pos_step() : templates
shrink_step() : templates
shuffle() : run
shuffle_nstruct() : out
shuffle_screening_jobs() : basic::options::OptionKeys::in::file , in::file
sicdock() : sicdock
sidechain_buried() : score
sidechain_exposed() : score
sidechain_only() : pb_potential
sigmoid_cs_A() : basic::options::OptionKeys::frags , frags
sigmoid_cs_B() : basic::options::OptionKeys::frags , frags
sign() : numeric
sign_transfered() : numeric
silent() : basic::options::OptionKeys::in::file , basic::options , in::file , out::file , remodel::design , resample , run
silent1() : stepwise
silent2() : stepwise
silent_comment_bound() : out::file
silent_decoytime() : out::file
silent_energy_cut() : basic::options::OptionKeys::in::file , in::file
silent_gz() : out
silent_input() : run
silent_list() : basic::options::OptionKeys::in::file , in::file
silent_optH() : basic::options::OptionKeys::in::file , in::file
silent_preserve_H() : out::file
silent_print_all_score_headers() : out::file
silent_read_through_errors() : basic::options::OptionKeys::in::file , in::file
silent_renumber() : basic::options::OptionKeys::in::file , in::file
silent_score_prefix() : basic::options::OptionKeys::in::file , in::file
silent_scores_wanted() : basic::options::OptionKeys::in::file , in::file
silent_select_random() : basic::options::OptionKeys::in::file , in::file
silent_select_range_len() : basic::options::OptionKeys::in::file , in::file
silent_select_range_mul() : basic::options::OptionKeys::in::file , in::file
silent_select_range_start() : basic::options::OptionKeys::in::file , in::file
silent_struct_type() : basic::options::OptionKeys::in::file , in::file , out::file
simple_append_map() : stepwise::rna
simultaneous_cycles() : remodel::RemodelLoopMover
sin_cos_range() : numeric
sin_of() : numeric
sinc() : numeric::statistics
sincos() : numeric::kinematic_closure::radians , numeric::kinematic_closure
single_chain() : basic::options::OptionKeys::frags::nonlocal , frags::nonlocal
single_helix_rmsd_cutoff() : sewing
single_link_clustering() : numeric
single_loop_ensemble_size() : basic::options::OptionKeys::enzdes , enzdes
single_res_scoring() : basic::options::OptionKeys::ddg , ddg
singlenode() : basic::options::OptionKeys::els , els
sinh_taylor() : numeric::statistics
skim_size() : basic::options::OptionKeys::lh , lh
skip() : rescore , utility::io
skip_1mers() : basic::options::OptionKeys::loops , loops
skip_3mers() : basic::options::OptionKeys::loops , loops
skip_9mers() : basic::options::OptionKeys::loops , loops
skip_ccd_moves() : basic::options::OptionKeys::loops , loops
skip_convergence_check() : abinitio , basic::options::OptionKeys::abinitio
skip_coord_constraints() : rna , stepwise::protein
skip_deletions() : stepwise::monte_carlo
skip_failed_simulations() : basic::options::OptionKeys::in::file , in::file
skip_fragment_moves() : RBSegmentRelax
skip_hydrogens() : score::saxs
skip_minimize() : stepwise::protein
skip_o2prime_trials() : rna
skip_on_noviolation_in_stage1() : basic::options::OptionKeys::fold_cst , fold_cst
skip_partial() : remodel::design
skip_rb_moves() : RBSegmentRelax
skip_redundant() : basic::options::OptionKeys::constraints , constraints
skip_redundant_width() : basic::options::OptionKeys::constraints , constraints
skip_relax() : basic::options::OptionKeys::cp , cp
skip_sampling() : stepwise::rna
skip_seqshift_moves() : RBSegmentRelax
skip_set_reasonable_fold_tree() : run
skip_stage2() : basic::options::OptionKeys::cm::hybridize , cm::hybridize
skip_stages() : abinitio , basic::options::OptionKeys::abinitio
slice_res1() : stepwise
slice_res2() : stepwise
slide_contact_frequency() : basic::options::OptionKeys::fold_and_dock , fold_and_dock
sliding_window() : basic::options::OptionKeys::edensity , edensity
sliding_window_wt() : basic::options::OptionKeys::edensity , edensity
slurp() : utility
small_cycles() : rigid
small_frag_insertion_weight() : basic::options::OptionKeys::cm::hybridize , cm::hybridize
small_moves() : remodel::staged_sampling
smallest_ring_size() : utility::graph
smhybrid() : smhybrid
smooth_cycles_only() : abinitio , basic::options::OptionKeys::abinitio
smooth_fa_elec() : score
smooth_move_frac() : basic::options::OptionKeys::membrane , membrane
smove_angle_range() : basic::options::OptionKeys::flexPepDocking , flexPepDocking
snug_loops() : antibody , basic::options::OptionKeys::antibody
snugfit() : antibody , basic::options::OptionKeys::antibody
soft_rep() : basic::options::OptionKeys::dna::specificity , basic::options::OptionKeys::docking::ligand , dna::specificity , docking::ligand
soft_rep_design() : packing
soft_wts() : pepspec , score
sog_cst_param() : basic::options::OptionKeys::constraints , constraints
sog_cutoff() : basic::options::OptionKeys::james , james
sog_upper_bound() : basic::options::OptionKeys::constraints , constraints
solvate() : packing
solve_sturm() : numeric::kinematic_closure
sort_groups_by_energy() : basic::options::OptionKeys::cluster , cluster
sort_groups_by_size() : basic::options::OptionKeys::cluster , cluster
span_files() : basic::options::OptionKeys::membrane , membrane
spanfile() : basic::options::OptionKeys::in::file , in::file
sparse_pdb_output() : basic::options::OptionKeys::dna::design , dna::design
sparta_dir() : basic::options::OptionKeys::evaluation , evaluation
special_rotweight() : basic::options::OptionKeys::motifs , motifs
specificity() : basic::options::OptionKeys::dna::design::specificity , basic::options::OptionKeys::dna::specificity , dna::design::specificity , dna::specificity
spherical_to_xyz() : numeric
spin() : basic::options::OptionKeys::docking , docking
spine_x() : basic::options::OptionKeys::frags , frags
spline_from_file() : numeric::interpolation
spline_interpolate() : numeric::interpolation::spline
spline_second_derivative() : numeric::interpolation::spline
split() : utility
split_to_list() : utility
split_to_set() : utility
split_whitespace() : utility
splitwork() : willmatch
spread() : basic::options::OptionKeys::loops , loops
spread_ss_element() : basic::options::OptionKeys::mh::score , mh::score
sq_vec_distance() : numeric::kdtree
sqr() : numeric::interpolation::spline , numeric::statistics
sqrt_pssm() : basic::options::OptionKeys::optE , optE
square() : numeric
square_score() : basic::options::OptionKeys::fingerprint , fingerprint
src_chain() : threadsc
src_first_resid() : threadsc
ss() : basic::options::OptionKeys::cm::hybridize , cm::hybridize , smhybrid , ufv
ss1() : basic::options::OptionKeys::mh::filter , mh::filter
ss2() : basic::options::OptionKeys::mh::filter , mh::filter
ss_pair() : remodel
ss_pred() : basic::options::OptionKeys::frags , frags
ss_type() : pepspec
SSrbrelax() : SSrbrelax
stage1() : resample
stage1_1_cycles() : basic::options::OptionKeys::cm::hybridize , cm::hybridize
stage1_2_cycles() : basic::options::OptionKeys::cm::hybridize , cm::hybridize
stage1_3_cycles() : basic::options::OptionKeys::cm::hybridize , cm::hybridize
stage1_4_cenrot_score() : basic::options::OptionKeys::cm::hybridize , cm::hybridize
stage1_4_cycles() : basic::options::OptionKeys::cm::hybridize , cm::hybridize
stage1_increase_cycles() : basic::options::OptionKeys::cm::hybridize , cm::hybridize
stage1_patch() : abinitio , basic::options::OptionKeys::abinitio , basic::options::OptionKeys::cm::hybridize , cm::hybridize
stage1_probability() : basic::options::OptionKeys::cm::hybridize , cm::hybridize
stage1_ramp_cst_cycle_factor() : basic::options::OptionKeys::fold_cst , fold_cst
stage1_ramp_cycles() : relax
stage1_ramp_inner_cycles() : relax
stage1_weights() : basic::options::OptionKeys::cm::hybridize , cm::hybridize
stage2() : resample
stage2_constraint_threshold() : basic::options::OptionKeys::fold_cst , fold_cst
stage2_cycles() : relax
stage2_increase_cycles() : basic::options::OptionKeys::cm::hybridize , cm::hybridize
stage2_patch() : abinitio , basic::options::OptionKeys::abinitio , basic::options::OptionKeys::cm::hybridize , cm::hybridize
stage2_repack_period() : relax
stage2_temperature() : basic::options::OptionKeys::cm::hybridize , cm::hybridize
stage2_weights() : basic::options::OptionKeys::cm::hybridize , cm::hybridize
stage2min_increase_cycles() : basic::options::OptionKeys::cm::hybridize , cm::hybridize
stage3_cycles() : relax
stage3a_patch() : abinitio , basic::options::OptionKeys::abinitio
stage3b_patch() : abinitio , basic::options::OptionKeys::abinitio
stage4_patch() : abinitio , basic::options::OptionKeys::abinitio
stage5_patch() : abinitio , basic::options::OptionKeys::abinitio
staged_sampling() : remodel::staged_sampling
stages() : rigid
standard() : basic::options
star() : abinitio::star , basic::options::OptionKeys::abinitio::star
start() : basic::options::OptionKeys::cutoutdomain , cutoutdomain
start_file() : basic::options
start_files() : basic::options
start_from() : basic::options::OptionKeys::docking::ligand , docking::ligand
start_from_random_rb_conf() : basic::options::OptionKeys::enzdes , enzdes
start_models_only() : basic::options::OptionKeys::cm , cm
start_native() : abinitio , basic::options::OptionKeys::abinitio
start_w_ideal_helices() : remodel::staged_sampling
starting_pdb() : remodel::staged_sampling
starting_refEs() : basic::options::OptionKeys::optE , optE
starting_sequence() : remodel::staged_sampling
starting_template() : basic::options::OptionKeys::cm::hybridize , cm::hybridize
startswith() : utility
static_pointer_cast() : utility::pointer
stats_cutoff() : antibody::design , basic::options::OptionKeys::antibody::design
status() : run
std_dev() : numeric::statistics
std_dev_with_provided_mean() : numeric::statistics
std_exit_wrapper() : utility::options
std_IO_exit_error_code() : out
steal_3mers() : abinitio , basic::options::OptionKeys::abinitio
steal_9mers() : abinitio , basic::options::OptionKeys::abinitio
steal_extra_residues() : basic::options::OptionKeys::cm , cm
stealfrags() : basic::options::OptionKeys::loops , loops
stealfrags_times() : basic::options::OptionKeys::loops , loops
stem_optimize() : antibody , basic::options::OptionKeys::antibody
stem_optimize_size() : antibody , basic::options::OptionKeys::antibody
stepwise() : stepwise
strand_assembly() : strand_assembly
strand_constraint() : templates
strand_dist_cutoff() : abinitio , basic::options::OptionKeys::abinitio
strand_movement_params() : RBSegmentRelax
strand_pair_weight() : basic::options::OptionKeys::mh::score , mh::score
stretch_strand_dist_cutoff() : abinitio , basic::options::OptionKeys::abinitio
strict_loops() : basic::options::OptionKeys::loops , loops
string2float() : utility
string2int() : utility
string2uint() : utility
string_split() : utility
string_split_multi_delim() : utility
string_to_sha1() : utility
stringafteroption() : basic::options
struct_ids() : basic::options::OptionKeys::in::dbms , in::dbms
structural_similarity() : basic::options::OptionKeys::evaluation , evaluation
subset_to_keep() : basic::options::OptionKeys::docking::ligand , docking::ligand
substitute_esc_chars() : utility::json_spirit
subsubs_attract() : smhybrid
subtract() : numeric
subtract_degree_angles() : basic
subtract_radian_angles() : basic
sucker_params() : basic::options::OptionKeys::in::file , in::file
suffix() : out
sulph_dist_cutoff() : basic::options::OptionKeys::bunsat_calc2 , bunsat_calc2
sum() : numeric
super_secret_fixed_interface_mode() : AnchoredDesign::testing , basic::options::OptionKeys::AnchoredDesign::testing
superimpose_native() : basic::options::OptionKeys::loops , loops
superimpose_to_file() : relax
superimpose_to_native() : relax
suppress_checkpointing() : basic::options::OptionKeys::ddg , ddg
suppress_checkpoints() : run
suppress_zero_occ_pdb_output() : out::file
surface() : basic::options::OptionKeys::flxbb::layer , flxbb::layer
surface_accessibility() : packstat
surface_vectors() : basic::options::OptionKeys::in::file , in::file
svmmodel() : ProQ
swap() : utility::keys , utility::pointer , utility
swap4_aligned() : utility
swap_loops() : basic::options::OptionKeys::fold_from_loops , fold_from_loops
swap_refine_confirm_protocols() : remodel
switch_concert_sub() : smhybrid
switch_focus_frequency() : stepwise::monte_carlo
symE_bonus() : score
symE_units() : score
symfragrm() : basic::options::OptionKeys::lh::symfragrm , lh::symfragrm
symm_def_template() : smhybrid
symm_def_template_reduced() : smhybrid
symm_file_tag() : smhybrid
symmetric_rmsd() : basic::options::OptionKeys::evaluation , evaluation , symmetry
symmetry() : basic::options::OptionKeys::docking::symmetry , docking::symmetry , symmetry
symmetry_c2_dock() : willmatch
symmetry_d2() : willmatch
symmetry_definition() : symmetry
symmetry_residue() : abinitio , basic::options::OptionKeys::abinitio
syn_G_potential_bonus() : score
sys_sleep() : utility