Here is a list of all namespace members with links to the namespace documentation for each member:

- l -

• l : basic::options::OptionKeys::in::file , in::file
• L() : ObjexxFCL::format
• l1 : test::G201_Module_Structure
• l1_template() : antibody , basic::options::OptionKeys::antibody
• l2_template() : antibody , basic::options::OptionKeys::antibody
• l3_template() : antibody , basic::options::OptionKeys::antibody
• L_alpha_comp_file : basic::options::OptionKeys::cyclic_peptide , cyclic_peptide
• L_beta_comp_file : basic::options::OptionKeys::cyclic_peptide , cyclic_peptide
• large_frag_mover_stage1_weight : basic::options::OptionKeys::broker , broker
• last_accepted_pose_dir : basic::options::OptionKeys::ddg , ddg
• last_index() : ObjexxFCL
• last_namespace() : binder
• last_pose : test::Workshop4test
• last_score : test::Workshop4test
• layer : basic::options::OptionKeys::flxbb::layer , flxbb::layer
• layer_lines : basic::options::OptionKeys::score::fiber_diffraction , score::fiber_diffraction
• layered_sasa : basic::options::OptionKeys::bunsat_calc2 , bunsat_calc2
• lazy_ig : basic::options::OptionKeys::packing , packing
• lazy_silent : basic::options::OptionKeys::in::file , in::file
• lazy_silent_file_reader : basic::options::OptionKeys::jd2 , jd2
• LazyResourceManagerCOP : basic::resource_manager
• LazyResourceManagerOP : basic::resource_manager
• lbfgs_M : basic::options::OptionKeys::optimization , optimization
• ldsrbb_high_scale : basic::options::OptionKeys::score , score
• ldsrbb_low_scale : basic::options::OptionKeys::score , score
• ldsrbb_maxlength : basic::options::OptionKeys::score , score
• ldsrbb_minlength : basic::options::OptionKeys::score , score
• le_tol() : numeric , ObjexxFCL
• lead_zero_Fstring_of() : ObjexxFCL
• lead_zero_string_of() : ObjexxFCL
• leave_antiparallel_way_H_bonded_models_by_terminal_strands : basic::options::OptionKeys::sewing , sewing
• leave_certain_model_ids : basic::options::OptionKeys::sewing , sewing
• leave_models_by_ss_num : basic::options::OptionKeys::sewing , sewing
• leave_models_with_E_terminal_ss : basic::options::OptionKeys::sewing , sewing
• leave_models_with_H_terminal_ss : basic::options::OptionKeys::sewing , sewing
• leave_other_waters : basic::options::OptionKeys::magnesium , magnesium
• leave_parallel_way_H_bonded_models_by_terminal_strands : basic::options::OptionKeys::sewing , sewing
• leave_these_model_ids : basic::options::OptionKeys::sewing , sewing
• left : basic::options::OptionKeys::ufv , ufv
• left_Fstring_of() : ObjexxFCL
• left_justified() : ObjexxFCL
• left_justify() : ObjexxFCL
• LEFT_PAREN : numeric::expression_parser
• left_string_of() : ObjexxFCL
• legacy_fastdens_score : basic::options::OptionKeys::edensity , edensity
• legacy_kic : basic::options::OptionKeys::loops , loops
• legal_minimization_types : options_rosetta
• len() : ObjexxFCL
• len_score : test::Workshop9test
• len_trim() : ObjexxFCL
• len_trim_whitespace() : ObjexxFCL
• length() : app::surface_docking::surf_param , basic::options::OptionKeys::hotspot , Equations , hotspot , make_symmdef_file_denovo
• Length : numeric
• length() : PhiPsi
• length_dep_srbb : basic::options::OptionKeys::score , score
• length_of_message() : utility::tag
• LETTERS() : utility
• level : basic::options::OptionKeys::out , basic::options::OptionKeys::packing::ex1 , basic::options::OptionKeys::packing::ex1aro , basic::options::OptionKeys::packing::ex1aro_exposed , basic::options::OptionKeys::packing::ex2 , basic::options::OptionKeys::packing::ex2aro , basic::options::OptionKeys::packing::ex2aro_exposed , basic::options::OptionKeys::packing::ex3 , basic::options::OptionKeys::packing::ex4 , basic::options::OptionKeys::packing::exdna , BuildPackagedBindings , out , packing::ex1 , packing::ex1aro , packing::ex1aro_exposed , packing::ex2 , packing::ex2aro , packing::ex2aro_exposed , packing::ex3 , packing::ex4 , packing::exdna
• levels : basic::options::OptionKeys::out , out
• lge() : ObjexxFCL
• lgt() : ObjexxFCL
• lh : basic::options::OptionKeys::lh , lh
• lh_cbreak_selection : basic::options::OptionKeys::remodel , remodel
• lh_closure_filter : basic::options::OptionKeys::remodel , remodel
• lh_ex_limit : basic::options::OptionKeys::remodel , remodel
• lh_filter_string : basic::options::OptionKeys::remodel , remodel
• LIB_FULL_PATH : basic
• library_expiry_time : basic::options::OptionKeys::lh , lh
• license : app::pyrosetta_toolkit::modules::prettytable::setup
• lig : basic::options::OptionKeys::mh::filter , mh::filter
• 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_p : test::T880_Other
• ligand_params : demo::D120_Ligand_interface
• ligand_res : basic::options::OptionKeys::magnesium , magnesium
• ligand_rotamer_index : basic::options::OptionKeys::match , match
• ligandFlag : calccontacts
• light_chain() : antibody , basic::options::OptionKeys::antibody
• light_heavy_template() : antibody , basic::options::OptionKeys::antibody
• limit_aroma_chi2 : basic::options::OptionKeys::relax , 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_per_pair : basic::options::OptionKeys::mh::dump , mh::dump
• limit_total_structures : basic::options::OptionKeys::cluster , cluster
• line : clean_pdb_keep_ligand
• line_edit : clean_pdb_keep_ligand , pyrosetta::toolbox::make_rna_rosetta_ready , toolbox::make_rna_rosetta_ready
• line_number() : binder
• linear_bonded_potential : basic::options::OptionKeys::score , score
• linear_chainbreak_weight : basic::options::OptionKeys::relax , relax
• linear_interpolate() : numeric
• linearizeLoops() : app::pyrosetta_toolkit::modules::tools::loops
• lines : clean_pdb_keep_ligand , pyrosetta::toolbox::make_rna_rosetta_ready , setup_pyrosetta , toolbox::make_rna_rosetta_ready
• linkage_conformer_data_file : basic::options::OptionKeys::carbohydrates , carbohydrates
• linker_cst : basic::options::OptionKeys::smhybrid , smhybrid
• LinkUnitOP : utility::signals
• linmem_ig : basic::options::OptionKeys::packing , packing
• linmin : score_app
• linmin_mover : loops_kic , test::T650_LoopsKIC
• linmin_only : basic::options::OptionKeys::cm::hybridize , cm::hybridize
• lipid_acc : basic::options::OptionKeys::mp::lipid_acc , mp::lipid_acc
• lipofile : basic::options::OptionKeys::in::file , in::file
• lipsfile : basic::options::OptionKeys::mp::setup , mp::setup
• 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
• list_valid_PyMOL_colors() : src::PyMolLink
• listener_tag_to_name() : basic::mpi
• listener_tags : basic::mpi
• lite : basic::options::OptionKeys::cluster , cluster
• LITERAL : numeric::expression_parser
• LiteralExpressionCOP : numeric::expression_parser
• LiteralExpressionOP : numeric::expression_parser
• LiteralTokenCOP : numeric::expression_parser
• LiteralTokenOP : numeric::expression_parser
• LJ() : ObjexxFCL::format
• lj_hbond_hdis : basic::options::OptionKeys::corrections::score , corrections::score
• lj_hbond_OH_donor_dis : basic::options::OptionKeys::corrections::score , corrections::score
• ljust() : ObjexxFCL
• lk_ball_for_bb : basic::options::OptionKeys::dna::specificity , dna::specificity
• lk_ball_ramp_width_A2 : basic::options::OptionKeys::dna::specificity , dna::specificity
• lk_ball_water_fade : basic::options::OptionKeys::dna::specificity , dna::specificity
• lk_ball_wtd_prefactors : basic::options::OptionKeys::dna::specificity , dna::specificity
• lk_ball_wtd_tag : basic::options::OptionKeys::dna::specificity , dna::specificity
• lle() : ObjexxFCL
• llt() : ObjexxFCL
• 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() : app::surface_docking::surf_param , IO , PhiPsi , yaml
• load_all() : yaml
• load_constraints() : app::surface_docking::constraints
• load_disulf() : app::surface_docking::constraints
• load_fasta_from_rcsb() : pyrosetta::toolbox::rcsb , toolbox::rcsb
• load_files() : compare_times
• load_from_pubchem() : pyrosetta::toolbox::load_ligand , toolbox::load_ligand
• load_from_rcsb() : pyrosetta::toolbox , pyrosetta::toolbox::rcsb , toolbox , toolbox::rcsb
• load_from_silent : basic::options::OptionKeys::optE , optE
• LOAD_HIERARCHY : basic
• load_PDB_components : basic::options::OptionKeys::in::file , in::file
• loadAtoms() : loadPDB
• LoaderType : basic::resource_manager
• loadProt() : loadPDB
• loadProtein() : loadPDB
• local_max() : numeric::fourier
• local_opt_only : basic::options::OptionKeys::ddg , ddg
• local_pdb_database : clean_pdb_keep_ligand
• local_redock_only : basic::options::OptionKeys::stepwise::monte_carlo , stepwise::monte_carlo
• local_relax : basic::options::OptionKeys::cp , cp
• localbb : basic::options::OptionKeys::canonical_sampling::probabilities , canonical_sampling::probabilities
• LocatorID : basic::resource_manager
• LocatorTag : basic::resource_manager
• LocatorType : basic::resource_manager
• lock_rings : basic::options::OptionKeys::rings , rings
• log() : numeric
• log_accepted_moves : basic::options::OptionKeys::rigid , rigid
• log_config : BuildPackagedBindings
• log_frags() : abinitio , basic::options::OptionKeys::abinitio
• log_scores_in_MC : basic::options::OptionKeys::mc , mc
• logger : pyrosetta , src
• long_frag_filename : demo::D060_Folding
• long_frag_length : demo::D060_Folding
• long_inserts : demo::D060_Folding
• long_of() : ObjexxFCL
• longdouble_of() : ObjexxFCL
• longer_names : amino_acids , pyrosetta::toolbox::make_rna_rosetta_ready , toolbox::make_rna_rosetta_ready
• LongLong : fmt
• longname : clean_pdb_keep_ligand , pyrosetta::toolbox::make_rna_rosetta_ready , toolbox::make_rna_rosetta_ready
• loodo : basic::options::OptionKeys::loodo , loodo
• loop : test::G200_Module_Region , test::T660_LoopBuilding
• loop1 : test::Workshop8test
• loop2 : basic::options::OptionKeys::chunk , chunk , test::Workshop8test
• loop_bb_min_allowed_dev : basic::options::OptionKeys::enzdes , enzdes
• loop_begin : demo::D080_Loop_modeling , loops , loops_kic , test::T650_LoopsKIC
• loop_close_level : basic::options::OptionKeys::cm , cm
• loop_combine_rate : basic::options::OptionKeys::loops , loops
• loop_cut : loops_kic , test::T650_LoopsKIC
• loop_cutpoint : demo::D080_Loop_modeling
• loop_definition_from_file : basic::options::OptionKeys::jumps , jumps
• loop_end : demo::D080_Loop_modeling , loops , loops_kic , test::T650_LoopsKIC
• loop_file : basic::options::OptionKeys::loops , loops
• loop_fixed_cost : basic::options::OptionKeys::score , score
• loop_generator_trials : basic::options::OptionKeys::enzdes , enzdes
• 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_p : test::T660_LoopBuilding
• loop_rebuild_filter : basic::options::OptionKeys::cm , cm
• loop_refine : loops , loops_kic , test::T650_LoopsKIC , test::T660_LoopBuilding , test::Workshop8test
• loop_string : basic::options::OptionKeys::lh , lh , test::G101_Functions_Output , test::G102_Functions_General , test::G103_Functions_Analysis
• loop_string_to_region() : app::pyrosetta_toolkit::modules::tools::general_tools
• loopArea() : app::pyrosetta_toolkit::modules::tools::loops
• loopBBMovemap() : app::pyrosetta_toolkit::modules::tools::loops
• loopChiMovemap() : app::pyrosetta_toolkit::modules::tools::loops
• loopChiPacker() : app::pyrosetta_toolkit::modules::tools::loops
• loopfcst : basic::options::OptionKeys::loopfcst , loopfcst
• loophash_cycles : basic::options::OptionKeys::remodel::RemodelLoopMover , remodel::RemodelLoopMover
• loophash_filter_acceptance_rate() : abinitio , basic::options::OptionKeys::abinitio
• LoopModel : basic::options::OptionKeys::LoopModel , LoopModel
• loopMovemap() : app::pyrosetta_toolkit::modules::tools::loops
• loopresdef : basic::options::OptionKeys::lh , lh
• looprlx_cycle_ratio : basic::options::OptionKeys::loops , loops
• loops : basic::options::OptionKeys::cluster , basic::options::OptionKeys::loops , cluster , loops , test::G200_Module_Region , test::T660_LoopBuilding , test::Workshop8test
• loops_as_strings : test::G101_Functions_Output , test::G102_Functions_General , test::G103_Functions_Analysis
• loops_as_strings_to_regions() : app::pyrosetta_toolkit::modules::tools::general_tools
• loops_subset : basic::options::OptionKeys::loops , loops
• loopscores : basic::options::OptionKeys::loops , loops
• loopsizes : basic::options::OptionKeys::lh , lh
• lores : basic::options::OptionKeys::stepwise , stepwise
• lores_scan : basic::options::OptionKeys::magnesium , magnesium
• lores_scorefxn : basic::options::OptionKeys::rna::farna , rna::farna
• loud : basic::options::OptionKeys::loodo , loodo
• low_patch : basic::options::OptionKeys::docking , docking
• low_pose : test::Workshop4test
• low_res_protocol_only : basic::options::OptionKeys::docking , docking
• low_score : test::Workshop4test
• lowercase() : ObjexxFCL
• LOWERCASE_ALPHANUMERICS() : utility
• LOWERCASE_LETTERS() : utility
• lowercased() : ObjexxFCL
• lowest_x_decoys : basic::options::OptionKeys::ddg , ddg
• lowres : basic::options::OptionKeys::mp::dock , mp::dock
• lowres_abinitio : basic::options::OptionKeys::flexPepDocking , flexPepDocking
• lowres_preoptimize : basic::options::OptionKeys::flexPepDocking , flexPepDocking
• lpad() : ObjexxFCL
• lpadded() : ObjexxFCL
• Lrms : loops
• lrms : test::Workshop8test
• Lrmsd : basic::options::OptionKeys::evaluation , evaluation
• lshift128() : numeric::random
• lstrip() : ObjexxFCL
• lstrip_whitespace() : ObjexxFCL
• lstripped() : ObjexxFCL
• lstripped_whitespace() : ObjexxFCL
• lt_tol() : numeric , ObjexxFCL