- v -

• vall() : basic::options::OptionKeys::in::file , in::file
• vall_file() : basic::options::OptionKeys::loops , loops , phil
• vall_torsions() : rna
• value_pH() : pH
• vars() : basic::options::OptionKeys::els , els
• vary_cutpoints() : AnchoredDesign , basic::options::OptionKeys::AnchoredDesign
• vary_frag_size() : templates
• vary_geometry() : rna
• vdw() : remodel
• VDW_atr_rep_screen() : stepwise::rna
• vdw_delta() : basic::options::OptionKeys::fast_loops , fast_loops
• VDW_rep_alignment_RMSD_CUTOFF() : stepwise::rna
• VDW_rep_delete_matching_res() : stepwise::rna
• VDW_rep_screen_physical_pose_clash_dist_cutoff() : stepwise::rna
• VDW_weight() : AnchoredDesign::testing , basic::options::OptionKeys::AnchoredDesign::testing
• vdw_weight_stage1() : abinitio , basic::options::OptionKeys::abinitio
• vec_distance() : numeric::kdtree
• vector_of_xyzvectors_to_FArray() : numeric
• vectorDiff() : numeric::kinematic_closure
• vectorsEqual() : numeric::kinematic_closure
• verbose() : basic::options::OptionKeys::ms , basic::options , ms , rescore , run
• VERBOSE() : stepwise::rna
• verbose_scores() : stepwise::monte_carlo
• verbosity() : run
• version() : run
• vicinity_degree() : basic::options::OptionKeys::loops , loops
• vicinity_sampling() : basic::options::OptionKeys::loops , loops
• view() : basic::options::OptionKeys::docking , basic::options::OptionKeys::fldsgn , basic::options::OptionKeys::flxbb , basic::options::OptionKeys::membrane , docking , fldsgn , flxbb , membrane , parser
• viol() : basic::options::OptionKeys::constraints , constraints
• viol_level() : basic::options::OptionKeys::constraints , constraints
• viol_type() : basic::options::OptionKeys::constraints , constraints
• violation_skip_basis() : basic::options::OptionKeys::fold_cst , fold_cst
• violation_skip_ignore() : basic::options::OptionKeys::fold_cst , fold_cst
• vipReportFile() : basic::options::OptionKeys::cp , cp
• virtual_loops() : basic::options::OptionKeys::cm::hybridize , cm::hybridize
• virtual_nterm() : smhybrid
• virtual_res() : basic::options::OptionKeys::full_model , full_model
• virtual_res_files() : smhybrid
• virtual_sugar_do_minimize() : stepwise::rna
• virtual_sugar_keep_base_fixed() : stepwise::rna
• virtual_sugar_legacy_mode() : stepwise::rna
• virtual_sugar_res() : basic::options::OptionKeys::full_model , full_model
• VOLUME_USED() : platform::file