- l -

• l() : basic::options::OptionKeys::in::file , in::file , numeric::interpolation::full::bin_density , numeric::interpolation::full::bin_width
• l1_template() : antibody , basic::options::OptionKeys::antibody
• l2_template() : antibody , basic::options::OptionKeys::antibody
• l3_template() : antibody , basic::options::OptionKeys::antibody
• last_accepted_pose_dir() : basic::options::OptionKeys::ddg , ddg
• layer() : basic::options::OptionKeys::flxbb::layer , flxbb::layer
• layered_sasa() : basic::options::OptionKeys::bunsat_calc2 , bunsat_calc2
• lazy_ig() : packing
• lazy_silent() : basic::options::OptionKeys::in::file , in::file
• lazy_silent_file_reader() : basic::options::OptionKeys::jd2 , jd2
• lbfgs_M() : basic::options::OptionKeys::optimization , optimization
• ldsrbb_high_scale() : score
• ldsrbb_low_scale() : score
• ldsrbb_maxlength() : score
• ldsrbb_minlength() : score
• le_tol() : numeric
• left() : ufv
• left_tail() : basic::options::OptionKeys::krassk , krassk
• legacy_fastdens_score() : basic::options::OptionKeys::edensity , edensity
• legacy_kic() : basic::options::OptionKeys::loops , loops
• length() : basic::options::OptionKeys::hotspot , hotspot
• length_dep_srbb() : score
• level() : out , packing::ex1 , packing::ex1aro , packing::ex1aro_exposed , packing::ex2 , packing::ex2aro , packing::ex2aro_exposed , packing::ex3 , packing::ex4 , packing::exdna
• levels() : out
• lh() : basic::options::OptionKeys::lh , lh
• lh_cbreak_selection() : remodel
• lh_closure_filter() : remodel
• lh_ex_limit() : remodel
• lh_filter_string() : remodel
• library_expiry_time() : basic::options::OptionKeys::lh , lh
• lig_name() : basic::options::OptionKeys::match , match
• lig_packer_weight() : basic::options::OptionKeys::enzdes , enzdes
• ligand() : basic::options::OptionKeys::docking::ligand , docking::ligand
• ligand_motif_sphere() : basic::options::OptionKeys::motifs , motifs
• ligand_pdb() : basic::options::OptionKeys::cm , cm
• ligand_rotamer_index() : basic::options::OptionKeys::match , match
• limit_aroma_chi2() : relax
• limit_bad_scores() : basic::options::OptionKeys::optE , optE
• limit_cluster_size() : basic::options::OptionKeys::cluster , cluster
• limit_cluster_size_percent() : basic::options::OptionKeys::cluster , cluster
• limit_clusters() : basic::options::OptionKeys::cluster , cluster
• limit_dist_matrix() : basic::options::OptionKeys::cluster , cluster
• limit_total_structures() : basic::options::OptionKeys::cluster , cluster
• linear_bonded_potential() : score
• linear_chainbreak_weight() : relax
• linear_interpolate() : numeric
• linker_cst() : smhybrid
• linkers_pdb1() : assembly , basic::options::OptionKeys::assembly
• linkers_pdb2() : assembly , basic::options::OptionKeys::assembly
• linmem_ig() : packing
• linmin_only() : basic::options::OptionKeys::cm::hybridize , cm::hybridize
• lipid_acc_files() : basic::options::OptionKeys::membrane , membrane
• lipofile() : basic::options::OptionKeys::in::file , in::file
• list() : basic::options::OptionKeys::in::file , in::file
• list_dir() : utility::file
• list_dnaconformers() : basic::options::OptionKeys::motifs , motifs
• list_motifs() : basic::options::OptionKeys::motifs , motifs
• listener_tag_to_name() : basic::message_listening
• lite() : basic::options::OptionKeys::cluster , cluster
• lj_hbond_hdis() : basic::options::OptionKeys::corrections::score , corrections::score
• lj_hbond_OH_donor_dis() : basic::options::OptionKeys::corrections::score , corrections::score
• lm_enorm() : numeric::nls
• lm_lmdif() : numeric::nls
• lm_lmpar() : numeric::nls
• lm_printout_std() : numeric::nls
• lm_qrfac() : numeric::nls
• lm_qrsolv() : numeric::nls
• lmmin() : numeric::nls
• load_from_silent() : basic::options::OptionKeys::optE , optE
• local_opt_only() : basic::options::OptionKeys::ddg , ddg
• local_redock_only() : stepwise::monte_carlo
• local_relax() : basic::options::OptionKeys::cp , cp
• localbb() : basic::options::OptionKeys::canonical_sampling::probabilities , canonical_sampling::probabilities
• lock_rings() : basic::options::OptionKeys::carbohydrates , carbohydrates
• log() : numeric
• log_accepted_moves() : rigid
• log_frags() : abinitio , basic::options::OptionKeys::abinitio
• loop2() : basic::options::OptionKeys::chunk , chunk
• loop_bb_min_allowed_dev() : basic::options::OptionKeys::enzdes , enzdes
• loop_close_level() : basic::options::OptionKeys::cm , cm
• loop_closure() : basic::options::OptionKeys::loops::loop_closure , loops::loop_closure
• loop_combine_rate() : basic::options::OptionKeys::loops , loops
• loop_definition_from_file() : basic::options::OptionKeys::jumps , jumps
• loop_farlx() : basic::options::OptionKeys::loops , loops
• loop_file() : basic::options::OptionKeys::LoopModel , basic::options::OptionKeys::loops , LoopModel , loops
• loop_fixed_cost() : score
• loop_generator_trials() : basic::options::OptionKeys::enzdes , enzdes
• loop_insert() : basic::options::OptionKeys::loops::loop_closure , loops::loop_closure
• loop_insert_rclrc() : basic::options::OptionKeys::loops::loop_closure , loops::loop_closure
• loop_model() : basic::options::OptionKeys::loops , loops
• loop_mov_cterm() : basic::options::OptionKeys::fold_from_loops , fold_from_loops
• loop_mov_nterm() : basic::options::OptionKeys::fold_from_loops , fold_from_loops
• loop_mover() : basic::options::OptionKeys::cm , cm
• loop_rebuild_filter() : basic::options::OptionKeys::cm , cm
• loopfcst() : basic::options::OptionKeys::loopfcst , loopfcst
• loophash_cycles() : remodel::RemodelLoopMover
• LoopModel() : basic::options::OptionKeys::LoopModel , LoopModel
• looprlx_cycle_ratio() : basic::options::OptionKeys::loops , loops
• loops() : basic::options::OptionKeys::cluster , basic::options::OptionKeys::loops , cluster , loops
• loops_subset() : basic::options::OptionKeys::loops , loops
• loopscores() : basic::options::OptionKeys::loops , loops
• loopsizes() : basic::options::OptionKeys::lh , lh
• low_patch() : basic::options::OptionKeys::docking , docking
• low_res_protocol_only() : basic::options::OptionKeys::docking , docking
• lowest_x_decoys() : basic::options::OptionKeys::ddg , ddg
• lowres_abinitio() : basic::options::OptionKeys::flexPepDocking , flexPepDocking
• lowres_preoptimize() : basic::options::OptionKeys::flexPepDocking , flexPepDocking
• Lrmsd() : basic::options::OptionKeys::evaluation , evaluation
• lshift128() : numeric::random
• lt_tol() : numeric
• lys_dun_th() : willmatch