- m -

• m1_ : protocols::hybridization::TMalign
• m1_b1_Ktheta_ : protocols::branch_angle::BranchParam1
• m1_b1_theta0_ : protocols::branch_angle::BranchParam1
• m1_b2_Ktheta_ : protocols::branch_angle::BranchParam2
• m1_b2_theta0_ : protocols::branch_angle::BranchParam2
• m1_m2_Ktheta_ : protocols::branch_angle::BranchParam1
• m1_m2_theta0_ : protocols::branch_angle::BranchParam1
• m2_ : protocols::hybridization::TMalign
• m2_b1_Ktheta_ : protocols::branch_angle::BranchParam1
• m2_b1_theta0_ : protocols::branch_angle::BranchParam1
• m2_b2_Ktheta_ : protocols::branch_angle::BranchParam2
• m2_b2_theta0_ : protocols::branch_angle::BranchParam2
• m_done_all : protocols::simple_moves::TailsScoreMover
• m_hill_size : protocols::simple_moves::TailsScoreMover
• m_number_of_hill_points : protocols::simple_moves::TailsScoreMover
• m_Temperature : protocols::relax::ClassicRelax
• m_Temperature_ : protocols::coarse_rna::CoarseRNA_DeNovoProtocol , protocols::farna::RNA_DeNovoProtocol , protocols::LoopRebuild
• machine_letter_ : protocols::wum::MPI_WorkUnitManager
• mag_rot_ : protocols::rigid::RigidBodyMotionMover
• mag_trans_ : protocols::rigid::RigidBodyMotionMover
• magnitude_ : protocols::abinitio::abscript::StructPerturberCM , protocols::kinematic_closure::perturbers::WalkingBondAnglePerturber , protocols::kinematic_closure::perturbers::WalkingPerturber , protocols::rbsegment_relax::SequenceShiftMover , protocols::simple_moves::sidechain_moves::PerturbChiSidechainMover
• main_chain_torsion_set_ : protocols::stepwise::modeler::protein::loop_close::StepWiseProteinCCD_Closer
• main_chain_torsion_set_for_moving_residues_ : protocols::stepwise::modeler::protein::StepWiseProteinBackboneSampler
• main_chain_torsion_set_lists_ : protocols::stepwise::sampler::protein::ProteinMainChainStepWiseSampler
• main_chain_torsion_set_save_ : protocols::stepwise::modeler::protein::loop_close::StepWiseProteinCCD_Closer
• main_chain_torsion_sets_ : protocols::stepwise::modeler::protein::loop_close::StepWiseProteinCCD_MultiPoseCloser
• main_chain_torsion_sets_for_moving_residues_ : protocols::stepwise::modeler::protein::loop_close::StepWiseProteinKIC_LoopBridger , protocols::stepwise::modeler::protein::StepWiseProteinBackboneSampler
• main_mover_ : protocols::simple_moves::ChangeAndResetFoldTreeMover
• mainchain_torsion_diff_threshold_ : protocols::dna::PDBOutput
• maintain_cap_seq_and_structure_ : protocols::simple_moves::RepeatPropagationMover
• maintain_cap_sequence_alone_ : protocols::simple_moves::RepeatPropagationMover
• make_bundle_ : protocols::helical_bundle::BundleGridSampler
• make_bundle_helix_movers_ : protocols::helical_bundle::MakeBundle
• make_movie_ : protocols::stepwise::monte_carlo::options::StepWiseMonteCarloOptions
• make_pymol_script_ : protocols::flxbb::LayerDesignOperation
• make_rasmol_format_file_ : protocols::toolbox::SelectResiduesByLayer
• MALARKEY : protocols::loops::loop_closure::ccd::CCDLoopClosureMover
• manager : protocols::forge::remodel::RemodelWorkingSet
• manager_ : protocols::fldsgn::BluePrintBDR , protocols::forge::components::BDR , protocols::forge::components::VarLengthBuild , protocols::forge::remodel::RemodelMover , protocols::jd2::archive::AbstractArchiveBase , protocols::protein_interface_design::movers::VLB
• manual_jump_pairs_ : protocols::seeded_abinitio::SeedFoldTree
• map_ : protocols::comparative_modeling::StealSideChainsMover , protocols::noesy_assign::ResonanceList
• map_cst_from_centroid_to_fa_ : protocols::abinitio::ResolutionSwitcher
• map_DOF_to_NM_ : protocols::normalmode::NormalModeMultifunc
• map_helix_pairings_ : protocols::fldsgn::topology::HelixPairingSet
• map_name_ : protocols::qsar::qsarMap
• map_NM_to_DOF_ : protocols::normalmode::NormalModeMultifunc
• map_strand_pairings_ : protocols::fldsgn::topology::StrandPairingSet
• map_to_cen_atom_ : protocols::noesy_assign::PeakAssignmentParameters
• map_to_original_ : protocols::toolbox::AllowInsert
• map_type_ : protocols::cryst::SetRefinementOptionsMover
• map_var_to_DOF_ : protocols::normalmode::NormalModeMultifunc
• map_var_to_modeno_ : protocols::normalmode::NormalModeMultifunc
• mapfile_ : protocols::cryst::LoadDensityMapMover
• mapfile_activated_ : protocols::stepwise::modeler::options::StepWiseProteinModelerOptions
• mapping_ : protocols::abinitio::Template , protocols::simple_moves::symmetry::NCSResMapping
• maps_ : protocols::frag_picker::scores::ABEGO_SS_Score
• markpsp_ : protocols::pockets::PocketGrid
• marksps_ : protocols::pockets::PocketGrid
• mask_ : protocols::electron_density::ReportFSC , protocols::electron_density::ScaleMapIntensities
• mask_output_ : protocols::electron_density::ScaleMapIntensities
• mask_reses_ : protocols::electron_density::SetupForDensityScoringMover
• mass : protocols::cartesian::CartesianAtom
• mass_ : protocols::md::MDBase
• mass_limit_ : protocols::ligand_docking::MolarMassFilter , protocols::ligand_docking::MolecularMassFilter
• master_ : protocols::match::Bool3DGridKinemageWriter , protocols::match::output::ResidueKinemageWriter , protocols::match::output::SingleDownstreamResidueWriter , protocols::match::output::WriteUpstreamHitKinemage , protocols::wum2::WorkUnit
• master_node_ : protocols::canonical_sampling::mc_convergence_checks::MPIBPool_RMSD , protocols::canonical_sampling::mc_convergence_checks::MPIPool_RMSD
• master_packer_ : protocols::stepwise::modeler::StepWiseConnectionSampler , protocols::stepwise::modeler::StepWiseModeler
• master_rank_ : protocols::inputter::InputterStream , protocols::jd2::MPIFileBufJobDistributor , protocols::loophash::MPI_LoopHashRefine_Master , protocols::mpi_refinement::MPI_Refine_Master
• master_weight_ : protocols::toolbox::pose_metric_calculators::EnergiesData
• masters_done_ : protocols::mpi_refinement::MPI_Refine_Emperor
• match_algorithm_ : protocols::match::output::WriteUpstreamCoordinateKinemage
• match_groups_ : protocols::match::output::MatchConsolidator
• match_groups_dshits_ : protocols::match::output::CloudPDBWriter
• match_groups_ushits_ : protocols::match::output::CloudPDBWriter
• match_names_ : protocols::match::output::MatchScoreWriter
• match_params_ : protocols::enzdes::SecondaryMatchProtocol
• match_positions_ : protocols::match::MatcherMover
• match_processing_successful_ : protocols::match::output::MatchProcessor
• match_score_writer_ : protocols::match::output::MatchProcessor
• match_scores_ : protocols::match::output::MatchScoreWriter
• matchCount : protocols::sparta::Sparta::SpartaLib
• matcher_ : protocols::match::output::UpstreamHitCacher
• matches_output_count_ : protocols::match::output::WriteUpstreamHitKinemage
• matchingFrags_ : protocols::forge::remodel::RemodelMover::instruction_flags
• matrix_ : protocols::simple_moves::FavorSequenceProfile
• matrix_A : protocols::simple_moves::BBGaussianMover
• matrix_dRdPhi : protocols::simple_moves::BBGaussianMover
• matrix_G : protocols::simple_moves::BBGaussianMover
• max_ : protocols::simple_filters::RepeatParameterFilter
• max_abs_inter_strand_dihedral_to_not_be_same_direction_strands_ : protocols::features::strand_assembly::SandwichFeatures
• max_allowed_conserved_pos_mutations_ : protocols::simple_filters::ConservedPosMutationFilter
• max_angle_ : protocols::rigid::RollMover , protocols::simple_filters::AngleToVector , protocols::simple_moves::RandomTorsionMover
• max_angle_disp_ : protocols::backrub::BackrubSegment
• max_angle_disp_4_ : protocols::backrub::BackrubMover
• max_angle_disp_7_ : protocols::backrub::BackrubMover
• max_angle_disp_slope_ : protocols::backrub::BackrubMover
• max_atoms_ : protocols::backrub::BackrubMover
• max_attempts_ : protocols::loop_modeling::LoopBuilder , protocols::rosetta_scripts::MultipleOutputWrapper
• max_bbrms_ : protocols::loophash::LoopHashMoverWrapper , protocols::loophash::LoopHashSampler
• max_bfactor_ : protocols::match::BfactorMPM
• max_bin_ : protocols::scoring::methods::saxs::PDDFEnergy
• max_buried_sasa_ : protocols::toolbox::task_operations::CrystalContactsOperation
• max_CA_CA_dis_ : protocols::features::strand_assembly::SandwichFeatures
• max_cache_size_ : protocols::canonical_sampling::mc_convergence_checks::HierarchicalLevel
• max_capacity_ : protocols::frag_picker::LazySortedVector1< T, StrictWeakOrdering >
• max_cav_ : protocols::simple_moves::AddCavitiesMover
• max_cb_cb_dist_ : protocols::protein_interface_design::movers::PlacementAuctionMover , protocols::protein_interface_design::movers::PlaceSimultaneouslyMover , protocols::protein_interface_design::movers::PlaceStubMover
• max_ccd_cycles_ : protocols::antibody::H3PerturbCCD
• max_chainbreak_ : protocols::analysis::LoopAnalyzerMover
• max_chi_considered_ : protocols::rotamer_recovery::RRComparerChiDiff
• max_chunk_size_ : protocols::frag_picker::scores::GunnCostScore
• max_cluster_size_ : protocols::pose_selectors::ClusterPoseSelector
• max_clusters_ : protocols::pose_selectors::ClusterPoseSelector
• max_com_vector_ang_cos_ : protocols::match::NumNeighborsMPM
• max_coord_ : protocols::canonical_sampling::HamiltonianExchange
• max_cycle_ : protocols::antibody::ModelCDRH3
• max_cycle_close_trial_ : protocols::antibody::H3RefineCCD
• max_cycles_ : protocols::loops::loop_closure::ccd::CCDLoopClosureMover
• max_ddg_score_ : protocols::frag_picker::nonlocal::NonlocalFrags
• max_decoys_ : protocols::stepwise::legacy::modeler::rna::StepWiseRNA_Clusterer , protocols::stepwise::modeler::align::StepWiseClusterer , protocols::stepwise::modeler::align::StepWiseLegacyClusterer , protocols::stepwise::modeler::align::StepWiseLegacyClustererSilentBased , protocols::stepwise::modeler::rna::StepWiseRNA_CombineLongLoopFilterer
• max_degrees_off_parallel_ : protocols::features::helixAssembly::HelixBundleFeatures
• max_dist_ : protocols::features::AtomAtomPairFeatures , protocols::simple_filters::ContactMapEvaluator
• max_dist_ndx_ : protocols::toolbox::KClusterElement
• max_dist_squared_ : protocols::stepwise::modeler::rna::checker::RNA_ChainClosableGeometryChecker
• max_distance_ : protocols::hotspot_hashing::LSMSearchPattern , protocols::simple_moves::AddConstraintsToCurrentConformationMover , protocols::stepwise::modeler::rna::checker::RNA_VDW_BinChecker , protocols::stepwise::sampler::rigid_body::RigidBodyStepWiseSamplerValueRange , protocols::toolbox::KClusterElement
• max_distance_squared_ : protocols::stepwise::modeler::StepWiseConnectionSampler , protocols::stepwise::screener::CentroidDistanceScreener , protocols::stepwise::screener::StubDistanceScreener
• max_E_in_extracted_sw_loop_ : protocols::features::strand_assembly::SandwichFeatures
• max_emperor_lib_round_ : protocols::loophash::MPI_LoopHashRefine_Emperor , protocols::mpi_refinement::MPI_Refine_Emperor
• max_ending_loop_size_ : protocols::features::strand_assembly::SandwichFeatures
• max_frag_size_ : protocols::farna::RNA_Relaxer , protocols::frag_picker::FragmentPicker
• max_gaplength_to_model_ : protocols::hybridization::MRMover
• max_generations_ : protocols::genetic_algorithm::GeneticAlgorithmBase
• max_H_in_extracted_sw_loop_ : protocols::features::strand_assembly::SandwichFeatures
• max_helix_fraction_ : protocols::simple_filters::AbinitioBaseFilter
• max_helix_length_ : protocols::fldsgn::filters::SecondaryStructureCountFilter , protocols::fldsgn::filters::SecondaryStructureHasResidueFilter , protocols::simple_filters::AbinitioBaseFilter
• max_inner_cycles_ : protocols::loops::loop_mover::refine::LoopMover_Refine_CCD
• max_input_poses_ : protocols::rosetta_scripts::MultiplePoseMover
• max_inter_sheet_dis_CA_CA_ : protocols::features::strand_assembly::SandwichFeatures
• max_inter_ss_bbrms_ : protocols::loophash::LoopHashDiversifier
• max_inter_strand_angle_to_not_be_same_direction_strands_ : protocols::features::strand_assembly::SandwichFeatures
• max_intra_ss_bbrms_ : protocols::loophash::LoopHashDiversifier
• max_iter_ : protocols::electron_density::BfactorFittingMover , protocols::relax::RelaxProtocolBase
• max_iterations_ : protocols::protein_interface_design::movers::LoopOver
• max_k48_cter_dist_ : protocols::ub_e2c::ubi_e2c_modeler
• max_kic_build_attempts_ : protocols::loops::loop_mover::perturb::LoopMover_Perturb_KIC
• max_length_ : protocols::antibody::CDRSetOptions , protocols::frag_picker::scores::PCS_FragDistance , protocols::protein_interface_design::movers::LoopFinder , protocols::toolbox::match_enzdes_util::EnzdesLoopInfo
• max_levels_ : protocols::canonical_sampling::mc_convergence_checks::HierarchicalLevel
• max_lib_size_ : protocols::loophash::MPI_LoopHashRefine , protocols::mpi_refinement::MPI_Refinement
• max_linear_chainbreak_ : protocols::fldsgn::BluePrintBDR , protocols::forge::components::BDR , protocols::forge::components::VarLengthBuild , protocols::forge::remodel::RemodelLoopMover , protocols::forge::remodel::RemodelMover
• max_loop_length_ : protocols::features::LoopAnchorFeatures , protocols::fldsgn::filters::SecondaryStructureCountFilter , protocols::fldsgn::filters::SecondaryStructureHasResidueFilter
• max_loop_rebuild : protocols::comparative_modeling::LoopRelaxThreadingMover
• max_loop_size_ : protocols::loophash::FastGapMover , protocols::loops::loop_closure::ccd::SlidingWindowLoopClosure
• max_loophash_per_structure_ : protocols::loophash::MPI_LoopHashRefine_Master
• max_memory_pose_num_ : protocols::stepwise::legacy::modeler::rna::StepWiseRNA_Clusterer
• max_missing_weight_ : protocols::stepwise::monte_carlo::options::StepWiseMonteCarloOptions , protocols::stepwise::monte_carlo::StepWiseMonteCarlo
• max_neighbors_ : protocols::match::NumNeighborsMPM
• max_noe_distance_ : protocols::noesy_assign::CrossPeakInfo
• max_nstr : protocols::simple_filters::SheetFilter
• max_nstruct_ : protocols::jd2::archive::ArchiveBase , protocols::loophash::LoopHashMoverWrapper , protocols::loophash::LoopHashSampler
• max_nstruct_list_ : protocols::abinitio::IterativeBase
• max_ntries_ : protocols::stepwise::modeler::protein::loop_close::StepWiseProteinCCD_MultiPoseCloser , protocols::stepwise::StepWiseSampleAndScreen
• max_num_strands_to_deal_ : protocols::features::strand_assembly::SandwichFeatures , protocols::features::strand_assembly::StrandBundleFeatures
• max_num_sw_per_pdb_ : protocols::features::strand_assembly::SandwichFeatures
• max_O_N_dis_ : protocols::features::strand_assembly::StrandBundleFeatures
• max_omega_ : protocols::analysis::LoopAnalyzerMover
• max_outgoing_wu_mem : protocols::wum2::StatusRequest
• max_output_poses_ : protocols::rosetta_scripts::MultiplePoseMover
• max_overlap_dis_ : protocols::match::output::UpstreamDownstreamCollisionFilter
• max_packet_size_ : protocols::moves::UDPSocketClient
• max_path_length_ : protocols::simple_filters::AveragePathLengthFilter
• max_pbond_ : protocols::analysis::LoopAnalyzerMover
• max_penalty_ : protocols::simple_filters::ResidueIEFilter
• max_per_move_torsion_delta_ : protocols::loops::loop_closure::ccd::CCDLoopClosureMover
• max_population_size_ : protocols::genetic_algorithm::GeneticAlgorithmBase
• max_pose_data_list_size_ : protocols::stepwise::modeler::rna::StepWiseRNA_CombineLongLoopFilterer
• max_poses_ : protocols::rosetta_scripts::AdditionalOutputWrapper , protocols::rosetta_scripts::MultipleOutputWrapper
• max_radius_ : protocols::hotspot_hashing::LSMSearchPattern , protocols::loophash::LoopHashDiversifier , protocols::loophash::LoopHashMoverWrapper , protocols::loophash::LoopHashSampler
• max_rama_ : protocols::analysis::LoopAnalyzerMover
• max_rama_score_increase_ : protocols::loops::loop_closure::ccd::RamaCheckBase
• max_rand_ : protocols::frag_picker::scores::ScoreEValuator
• max_range_ : protocols::stepwise::sampler::rna::RNA_ChiStepWiseSampler
• max_ref_lib_size_ : protocols::mpi_refinement::MPI_Refinement
• max_registry_shift_ : protocols::hybridization::FoldTreeHybridize , protocols::hybridization::HybridizeProtocol , protocols::hybridization::HybridizeSetup
• max_registry_shift_global_ : protocols::hybridization::ChunkTrialMover
• max_repeats_ : protocols::symmetric_docking::SymDockProtocol , protocols::ub_e2c::ubi_e2c_modeler
• max_repulsion_energy_ : protocols::flxbb::InterlockAroma
• max_res_in_strand_ : protocols::features::strand_assembly::StrandBundleFeatures
• max_residue_count_ : protocols::simple_filters::ResidueCountFilter
• max_rms_ : protocols::enzdes::ResidueConformerFilter , protocols::loophash::FastGapMover , protocols::loophash::LoopHashDiversifier , protocols::loophash::LoopHashMoverWrapper , protocols::loophash::LoopHashSampler
• max_rmsd_after_relax_ : protocols::frag_picker::nonlocal::NonlocalFrags
• max_sample_iterations_ : protocols::loops::loop_closure::kinematic_closure::KinematicPerturber
• max_sample_per_structure_ : protocols::mpi_refinement::MPI_Refine_Master
• max_samples_ : protocols::helical_bundle::BundleGridSampler
• max_seglen_ : protocols::loops::loop_mover::perturb::LoopMover_Perturb_KIC , protocols::loops::loop_mover::refine::LoopMover_Refine_KIC
• max_seq_sep_ : protocols::constraints_additional::ConstraintEvaluator , protocols::constraints_additional::MaxSeqSepConstraintSet
• max_seq_sep_fudge_ : protocols::abinitio::ConstraintFragmentSampler , protocols::abinitio::FoldConstraints
• max_sheet_angle_ : protocols::features::strand_assembly::StrandBundleFeatures
• max_sheet_angle_by_four_term_cen_res_ : protocols::features::strand_assembly::SandwichFeatures
• max_sheet_angle_with_cen_res_in_smaller_sheet_and_two_terminal_res_in_larger_sheet_ : protocols::features::strand_assembly::SandwichFeatures
• max_sheet_dis_ : protocols::features::strand_assembly::SandwichFeatures , protocols::features::strand_assembly::StrandBundleFeatures
• max_sheet_length_ : protocols::fldsgn::filters::SecondaryStructureCountFilter , protocols::fldsgn::filters::SecondaryStructureHasResidueFilter
• max_sheet_torsion_ : protocols::features::strand_assembly::StrandBundleFeatures
• max_sheet_torsion_cen_res_ : protocols::features::strand_assembly::SandwichFeatures
• max_shift_ : protocols::rbsegment_relax::OptimizeThreadingMover
• max_sims_per_pt_ : protocols::cluster::APCluster
• max_small_angle_ : protocols::simple_moves::oop::OopRandomSmallMover
• max_starting_loop_size_ : protocols::features::strand_assembly::SandwichFeatures
• max_struct_ : protocols::loophash::LoopHashDiversifier , protocols::loophash::LoopHashMoverWrapper , protocols::loophash::LoopHashSampler , protocols::simple_moves::CombinePoseMover
• max_struct_per_radius_ : protocols::loophash::LoopHashMoverWrapper , protocols::loophash::LoopHashSampler
• max_struct_try_ : protocols::simple_moves::CombinePoseMover
• max_structures_ : protocols::pose_selectors::ClusterPoseSelector
• max_swap_buffer_size_ : protocols::wum::WorkUnitQueue_Swapped
• MAX_TARGETS : protocols::pockets::PocketGrid
• max_threads_ : protocols::frag_picker::FragmentPicker
• max_total_torsion_delta_ : protocols::loops::loop_closure::ccd::CCDLoopClosureMover
• max_trans_ : protocols::topology_broker::RigidBodyRandomTMHMover
• max_trials_ : protocols::enzdes::DiversifyStoredRBConfs
• max_tries_ : protocols::moves::FilterMover , protocols::simple_moves::DME_FilterMover , protocols::stepwise::sampler::rna::RNA_KIC_Sampler
• max_tries_for_random_sugar_setup_ : protocols::stepwise::modeler::rna::sugar::StepWiseRNA_VirtualSugarSampler
• max_tries_multiplier_for_ccd_ : protocols::stepwise::options::StepWiseBasicOptions
• max_type_ : protocols::noesy_assign::PeakCalibrator
• max_type_direct_ : protocols::noesy_assign::PeakCalibrator
• max_value_ : protocols::simple_moves::PSSM2BfactorMover
• max_weight_ : protocols::optimize_weights::WeightRangeConstraint
• maxcycles_ : protocols::moves::IteratedConvergenceMover
• maxfrac_ : protocols::mpi_refinement::WorkUnit_CombinePose
• maxfrac_crossover_ : protocols::simple_moves::CombinePoseMover
• maxiter_ : protocols::md::Rattle
• maxLen_ : protocols::pockets::PocketGrid
• maxPockSize_ : protocols::pockets::PocketGrid
• maxtrials_ : protocols::simple_moves::GenericMonteCarloMover
• maxX : protocols::pockets::CCluster , protocols::pockets::PCluster
• maxY : protocols::pockets::CCluster , protocols::pockets::PCluster
• maxZ : protocols::pockets::CCluster , protocols::pockets::PCluster
• mc_ : protocols::abinitio::abscript::AbscriptMover , protocols::abinitio::abscript::AbscriptMover::StageTracker , protocols::abinitio::abscript::AbscriptStageMover , protocols::abinitio::ClassicAbinitio , protocols::abinitio::FragmentSampler , protocols::abinitio::MembraneAbinitio , protocols::antibody::design::AntibodyGraftDesignMover , protocols::antibody::GraftedStemOptimizer , protocols::antibody::H3PerturbCCD , protocols::antibody::H3RefineCCD , protocols::antibody::SnugDock , protocols::canonical_sampling::CanonicalSamplingMover , protocols::docking::DockingHighResLegacy , protocols::docking::DockingLowRes , protocols::docking::DockingProtocol , protocols::docking::DockMCMCycle , protocols::docking::DockMinMover , protocols::flexpep_docking::FlexPepDockingAbInitio , protocols::flexpep_docking::FlexPepDockingLowRes , protocols::flexpep_docking::FlexPepDockingProtocol , protocols::LoopRebuild , protocols::loops::loop_closure::ccd::LoopClosure , protocols::loops::loop_mover::refine::LoopRefineInnerCycle
• MC_ : protocols::moves::DualMonteCarlo
• mc_ : protocols::moves::MCShowMover , protocols::moves::MonteCarloUtil , protocols::moves::RampingMover , protocols::moves::TrialMover , protocols::rbsegment_relax::RBSegmentRelax , protocols::relax::ClassicRelax , protocols::simple_moves::EnergyCutRotamerTrialsMinMover , protocols::simple_moves::EnergyCutRotamerTrialsMover , protocols::simple_moves::rational_mc::RationalMonteCarlo , protocols::simple_moves::symmetry::SymEnergyCutRotamerTrialsMover , protocols::symmetric_docking::SymDockingHiRes , protocols::symmetric_docking::SymDockingLowRes , protocols::symmetric_docking::SymDockProtocol
• mc_accepted_ : protocols::moves::MonteCarlo , protocols::simple_moves::GenericMonteCarloMover
• mc_created : protocols::LoopRebuild
• mc_cycles_ : protocols::seeded_abinitio::SegmentHybridizer
• mc_filter_ : protocols::simple_moves::asym_fold_and_dock::AsymFoldandDockRbTrialMover , protocols::symmetric_docking::SymFoldandDockRbTrialMover
• mc_initial_pose_ : protocols::ncbb::NcbbDockDesignProtocol , protocols::ncbb::oop::OopDockDesignProtocol
• mc_kt_ : protocols::enzdes::BackboneSampler , protocols::protein_interface_design::movers::BackrubDDMover
• mc_kt_high_ : protocols::enzdes::EnzdesFlexBBProtocol
• mc_kt_low_ : protocols::enzdes::EnzdesFlexBBProtocol
• MC_mover_ : protocols::simple_moves::MonteCarloRecover , protocols::simple_moves::MonteCarloReset , protocols::simple_moves::MonteCarloTest
• mc_scorefxn_ : protocols::hybridization::CartesianSampler
• mc_temp : protocols::simple_moves::ShakeStructureMover
• mc_temp_ : protocols::ncbb::NcbbDockDesignProtocol , protocols::ncbb::oop::OopDockDesignProtocol
• mcfi_ : protocols::toolbox::match_enzdes_util::EnzConstraintParameters
• mcfi_lists_ : protocols::toolbox::match_enzdes_util::EnzConstraintIO
• mcfis_ : protocols::toolbox::match_enzdes_util::MatchConstraintFileInfoList
• mcfis_for_restype_ : protocols::toolbox::match_enzdes_util::MatchConstraintFileInfoList
• mcm_cycles : protocols::flexpep_docking::FlexPepDockingFlags
• md_energy_report_stepsize_ : protocols::md::MDBase
• md_report_stepsize_ : protocols::md::MDBase
• md_rsr_update_stepsize_ : protocols::md::MDBase
• mdsch_ : protocols::md::MDBase
• mean_ : protocols::ddg::ddGMover
• median_ : protocols::filters::ReplicateFilter
• median_rms_ : protocols::cluster::ClusterBase
• mem_center_ : protocols::membrane::TransformIntoMembraneMover
• mem_normal_ : protocols::membrane::TransformIntoMembraneMover
• member : protocols::cluster::Cluster
• membrane_ : protocols::docking::DockingPrepackProtocol
• membrane_jumps_ : protocols::abinitio::AbrelaxApplication
• membrane_rsd_ : protocols::membrane::AddMembraneMover
• memory_limit_ : protocols::wum::WorkUnitQueue , protocols::wum::WorkUnitQueue_Swapped
• memory_offset_ : protocols::canonical_sampling::mc_convergence_checks::DataBuffer , protocols::canonical_sampling::mc_convergence_checks::TransferBuffer
• metal_site_ : protocols::metal_interface::ZincHeterodimerMover
• metal_to_mobile_ : protocols::metal_interface::ZincHeterodimerMover
• method_ : protocols::mpi_refinement::Clusterer
• methodname_ : protocols::mpi_refinement::Scheduler
• methods_picked_ : protocols::mpi_refinement::Scheduler
• methyl_names_ : protocols::noesy_assign::MethylNameLibrary
• metric_ : protocols::simple_filters::PoseMetricEvaluator< T >
• metric_value_getters_ : protocols::multistate_design::MultiStateFitnessFunction
• metric_value_map_ : protocols::multistate_design::SingleStateEntityData
• metric_value_template_ : protocols::toolbox::pose_metric_calculators::MetricValueGetter
• metropolis_hastings_mover_ : protocols::simple_moves::sidechain_moves::SidechainMCMover
• mh_ : protocols::sic_dock::scores::MotifHashRigidScore
• mid_ : protocols::pockets::PocketGrid
• mid_dist_ : protocols::fldsgn::potentials::sspot::NatbiasHelixPairPotential
• mid_pos_ : protocols::fldsgn::topology::SS_Base
• middle_offset_ : protocols::stepwise::modeler::protein::loop_close::StepWiseProteinKIC_LoopBridger
• middle_pack_min_ : protocols::antibody::AntibodyModelerProtocol
• middle_res_ : protocols::loops::loop_closure::kinematic_closure::KinematicMover , protocols::stepwise::modeler::protein::loop_close::StepWiseProteinKIC_LoopBridger
• min_ : protocols::ddg::ddGMover , protocols::simple_filters::RepeatParameterFilter
• min_aa_probability_ : protocols::toolbox::task_operations::SeqprofConsensusOperation
• min_after_repack_ : protocols::loops::loop_mover::refine::LoopMover_Refine_KIC
• min_all_jumps_ : protocols::enzdes::EnzdesBaseProtocol
• min_angle_ : protocols::rigid::RollMover , protocols::simple_filters::AngleToVector
• min_atoms_ : protocols::backrub::BackrubMover
• min_base_relax_ : protocols::antibody_legacy::CDRH3Modeler
• min_bb_ : protocols::enzdes::EnzRepackMinimize , protocols::protein_interface_design::movers::PrepackMover , protocols::simple_moves::DesignRepackMover , protocols::simple_moves::symmetry::TaskAwareSymMinMover
• min_bb_set_ : protocols::simple_moves::DesignRepackMover
• min_bbrms_ : protocols::loophash::LoopHashMoverWrapper , protocols::loophash::LoopHashSampler
• min_bin_ : protocols::scoring::methods::saxs::PDDFEnergy
• min_bpy_contacts_ : protocols::sic_dock::scores::TrisBpyScore
• min_breakout_fast_loops_ : protocols::loops::loop_closure::ccd::WidthFirstSlidingWindowLoopClosure
• min_breakout_good_loops_ : protocols::loops::loop_closure::ccd::SlidingWindowLoopClosure
• min_C_O_N_angle_ : protocols::features::strand_assembly::SandwichFeatures
• min_CA_CA_dis_ : protocols::features::strand_assembly::SandwichFeatures
• min_chi_ : protocols::make_rot_lib::RotData , protocols::simple_moves::symmetry::TaskAwareSymMinMover
• min_client_rank_ : protocols::jd2::MPIFileBufJobDistributor
• min_com_vector_ang_cos_ : protocols::match::NumNeighborsMPM
• min_contacts_per_res_ : protocols::frag_picker::nonlocal::NonlocalFrags
• min_contribution_symmetric_peaks_ : protocols::noesy_assign::PeakAssignmentParameters
• min_cst : protocols::simple_moves::ShakeStructureMover
• min_cst_ : protocols::ddg::ddGMover
• min_cst_mut_types_ : protocols::ddg::ddGMover
• min_cst_set_mut_ : protocols::ddg::ddGMover
• min_cst_set_wt_ : protocols::ddg::ddGMover
• min_cst_sfxn_ : protocols::ddg::ddGMover
• min_cst_sfxn_no_cst_weight_ : protocols::ddg::ddGMover
• min_cst_wt_types_ : protocols::ddg::ddGMover
• min_cycles_ : protocols::seeded_abinitio::SegmentHybridizer
• min_decoys_for_statistics_ : protocols::jd2::archive::NormalizedEvaluatedArchive
• min_dist_ : protocols::features::AtomAtomPairFeatures , protocols::noesy_assign::FragsToAtomDist::DistanceRecord
• min_dist_squared_ : protocols::stepwise::modeler::rna::checker::RNA_ChainClosableGeometryChecker
• min_diversity_list_ : protocols::abinitio::IterativeBase
• min_env_energy_ : protocols::flxbb::InterlockAroma
• min_epsilon_ : protocols::make_rot_lib::RotData
• min_fast_loops_ : protocols::loops::loop_closure::ccd::WidthFirstSlidingWindowLoopClosure
• min_frag_length_ : protocols::simple_moves::ClassicFragmentMover
• min_good_loops_ : protocols::loops::loop_closure::ccd::SlidingWindowLoopClosure
• min_helix_length_ : protocols::fldsgn::filters::SecondaryStructureCountFilter , protocols::fldsgn::filters::SecondaryStructureHasResidueFilter
• min_inter_sheet_dis_CA_CA_ : protocols::features::strand_assembly::SandwichFeatures
• min_inter_ss_bbrms_ : protocols::loophash::LoopHashDiversifier
• min_interacting_set_fraction_ : protocols::features::helixAssembly::HelixBundleFeatures
• min_interface_ : protocols::antibody::design::AntibodyDesignMoverGenerator
• min_intra_ss_bbrms_ : protocols::loophash::LoopHashDiversifier
• min_len_helix_ : protocols::frags::TorsionFragmentMover
• min_len_strand_ : protocols::frags::TorsionFragmentMover
• min_length_ : protocols::antibody::CDRSetOptions , protocols::protein_interface_design::movers::LoopFinder , protocols::toolbox::match_enzdes_util::EnzdesLoopInfo
• min_lig_ : protocols::enzdes::EnzRepackMinimize
• min_loop_length_ : protocols::features::LoopAnchorFeatures , protocols::fldsgn::filters::SecondaryStructureCountFilter , protocols::fldsgn::filters::SecondaryStructureHasResidueFilter , protocols::jumping::JumpSelector
• min_loop_size_ : protocols::comparative_modeling::MultiThreadingMover , protocols::comparative_modeling::ThreadingMover , protocols::domain_assembly::AssembleLinkerMover , protocols::loophash::FastGapMover , protocols::loops::loop_closure::ccd::SlidingWindowLoopClosure , protocols::topology_broker::RigidChunkClaimer
• min_map : protocols::cartesian::MolecularDynamics
• min_map_ : protocols::md::CartesianMD , protocols::normalmode::NormalModeMultifunc
• min_move_ : protocols::abinitio::FoldConstraints
• min_movemap_ : protocols::dna::DnaInterfacePacker
• min_mover_ : protocols::relax::ClassicRelax , protocols::symmetric_docking::SymDockingHiRes
• min_N_H_O_angle_between_two_sheets_ : protocols::features::strand_assembly::SandwichFeatures
• min_N_O_dis_between_two_sheets_ : protocols::features::strand_assembly::SandwichFeatures
• min_nb_ : protocols::simple_moves::AddCavitiesMover
• min_neighbor_sc_ : protocols::antibody::design::CDRGraftDesignOptions
• min_neighbors_ : protocols::match::NumNeighborsMPM
• min_num_south_sugar_filter_ : protocols::stepwise::legacy::modeler::rna::StepWiseRNA_Clusterer
• min_num_strands_in_sheet_ : protocols::features::strand_assembly::SandwichFeatures
• min_num_strands_to_deal_ : protocols::features::strand_assembly::SandwichFeatures , protocols::features::strand_assembly::StrandBundleFeatures
• min_O_N_dis_ : protocols::features::strand_assembly::StrandBundleFeatures
• min_omega_ : protocols::make_rot_lib::RotData
• min_only : protocols::flexpep_docking::FlexPepDockingFlags
• min_options_ : protocols::loop_modeling::refiners::MinimizationRefiner , protocols::loops::loop_mover::refine::ShearMinCCDTrial , protocols::simple_moves::MinMover , protocols::simple_moves::SaneMinMover
• min_overlap_ : protocols::simple_moves::ClassicFragmentMover
• min_params : protocols::relax::CentroidRelax::parameters
• min_per_residue_fa_attr_ : protocols::features::helixAssembly::HelixBundleFeatures
• min_primary_seq_distance_diff_for_electrostatic_interactions_ : protocols::features::strand_assembly::SandwichFeatures
• min_rb_ : protocols::antibody::design::CDRGraftDesignOptions , protocols::enzdes::EnzRepackMinimize , protocols::simple_moves::DesignRepackMover , protocols::simple_moves::symmetry::TaskAwareSymMinMover
• min_rb_set_ : protocols::simple_moves::DesignRepackMover
• min_receptor_bb : protocols::flexpep_docking::FlexPepDockingFlags
• min_res_in_strand_ : protocols::features::strand_assembly::SandwichFeatures , protocols::features::strand_assembly::StrandBundleFeatures
• min_residue_count_ : protocols::simple_filters::ResidueCountFilter
• min_rms_ : protocols::enzdes::DiversifyStoredRBConfs , protocols::enzdes::MinimizeStoredRBConfs , protocols::loophash::FastGapMover , protocols::loophash::LoopHashDiversifier , protocols::loophash::LoopHashMoverWrapper , protocols::loophash::LoopHashSampler
• min_sc_ : protocols::antibody::design::AntibodyDesignMoverGenerator , protocols::antibody::design::CDRGraftDesignOptions , protocols::enzdes::EnzRepackMinimize , protocols::simple_moves::DesignRepackMover
• min_sc_set_ : protocols::simple_moves::DesignRepackMover
• min_scorefxn : protocols::simple_moves::ShakeStructureMover
• min_scorefxn_ : protocols::hybridization::CartesianHybridize , protocols::seeded_abinitio::SegmentHybridizer
• min_sep_ : protocols::simple_moves::AddCavitiesMover
• min_sep_d2_from_upstream_atoms_ : protocols::match::downstream::LigandConformerBuilder , protocols::match::downstream::RigidLigandBuilder
• min_seq_sep_ : protocols::frag_picker::nonlocal::NonlocalFrags , protocols::simple_moves::AddConstraintsToCurrentConformationMover
• min_seq_separation_ : protocols::toolbox::pose_metric_calculators::NonlocalContactsCalculator
• min_seqsep_ : protocols::simple_filters::ContactMapEvaluator
• min_sheet_angle_ : protocols::features::strand_assembly::StrandBundleFeatures
• min_sheet_angle_by_four_term_cen_res_ : protocols::features::strand_assembly::SandwichFeatures
• min_sheet_dis_ : protocols::features::strand_assembly::SandwichFeatures , protocols::features::strand_assembly::StrandBundleFeatures
• min_sheet_length_ : protocols::fldsgn::filters::SecondaryStructureCountFilter , protocols::fldsgn::filters::SecondaryStructureHasResidueFilter
• min_sheet_torsion_ : protocols::features::strand_assembly::StrandBundleFeatures
• min_sheet_torsion_cen_res_ : protocols::features::strand_assembly::SandwichFeatures
• min_shortest_dis_sidechain_inter_sheet_ : protocols::features::strand_assembly::StrandBundleFeatures
• min_size_ : protocols::simple_moves::AddCavitiesMover
• min_structures_for_acceptance_statistics_ : protocols::jd2::archive::ArchiveBase
• min_threshold_ : protocols::antibody::LHRepulsiveRampLegacy
• min_tolerance : protocols::relax::ClassicRelax
• min_tolerance_ : protocols::antibody::CDRsMinPackMin , protocols::antibody::H3RefineCCD , protocols::docking::DockingHighResLegacy , protocols::docking::DockMCMCycle , protocols::docking::DockMinMover , protocols::helical_bundle::FitSimpleHelix , protocols::stepwise::legacy::modeler::protein::StepWiseProteinMinimizer , protocols::stepwise::options::StepWiseBasicOptions , protocols::symmetric_docking::SymDockingHiRes , protocols::ub_e2c::ubi_e2c_modeler
• min_type : protocols::relax::ClassicRelax
• min_type_ : protocols::anchored_design::AnchoredPerturbMover , protocols::anchored_design::AnchoredRefineMover , protocols::antibody::CDRsMinPackMin , protocols::antibody::LHRepulsiveRampLegacy , protocols::antibody::LHSnugFitLegacy , protocols::docking::DockingHighResLegacy , protocols::docking::DockMCMCycle , protocols::docking::DockMinMover , protocols::farna::RNA_Minimizer , protocols::helical_bundle::FitSimpleHelix , protocols::relax::RelaxProtocolBase , protocols::simple_moves::symmetry::TaskAwareSymMinMover , protocols::stepwise::legacy::modeler::protein::StepWiseProteinMinimizer , protocols::stepwise::options::StepWiseBasicOptions , protocols::symmetric_docking::SymDockingHiRes , protocols::ub_e2c::ubi_e2c_modeler
• min_value_ : protocols::simple_moves::PSSM2BfactorMover
• min_VC_to_write_ : protocols::noesy_assign::PeakFileFormat_Base
• min_volume_ : protocols::noesy_assign::PeakAssignmentParameters
• min_weight_ : protocols::optimize_weights::WeightRangeConstraint
• minfrac_ : protocols::mpi_refinement::WorkUnit_CombinePose
• minfrac_crossover_ : protocols::simple_moves::CombinePoseMover
• mingap_ : protocols::protein_interface_design::movers::LoopFinder
• mini_pose_list_ : protocols::farna::ChunkSet
• mini_pose_lists_ : protocols::farna::BasePairStepLibrary
• minimization_mode_ : protocols::helical_bundle::FitSimpleHelixMultiFunc
• minimization_movers_ : protocols::protein_interface_design::movers::PlaceSimultaneouslyMover
• minimization_rebuild_rounds_ : protocols::simple_moves::CyclizationMover
• minimization_repeats_after_placement_ : protocols::protein_interface_design::movers::PlaceSimultaneouslyMover
• minimization_repeats_before_placement_ : protocols::protein_interface_design::movers::PlaceSimultaneouslyMover
• minimization_scorefxns_ : protocols::protein_interface_design::movers::MapHotspot
• minimization_type_ : protocols::antibody::H3RefineCCD
• minimize_ : protocols::dna::DnaInterfacePacker , protocols::motifs::LigandMotifSearch , protocols::motifs::MotifSearch , protocols::mpi_refinement::StructAvrgMover , protocols::simple_moves::CyclizationMover
• minimize_after_delete_ : protocols::stepwise::monte_carlo::mover::DeleteMover
• minimize_all_ : protocols::stepwise::modeler::rna::helix::RNA_HelixAssembler
• minimize_all_ligand_torsions_ : protocols::enzdes::EnzdesBaseProtocol
• minimize_all_rsds_ : protocols::ligand_docking::LigandDockProtocol
• minimize_and_score_native_pose_ : protocols::stepwise::modeler::options::StepWiseRNA_ModelerOptions
• minimize_and_score_sugar_ : protocols::stepwise::modeler::options::StepWiseRNA_ModelerOptions
• minimize_backbone_ : protocols::ligand_docking::LigandDockProtocol
• minimize_best_tensor_ : protocols::scoring::methods::pcs::PCS_Energy_parameters_manager , protocols::scoring::methods::pcsTs1::PCS_Energy_parameters_manager_Ts1 , protocols::scoring::methods::pcsTs2::PCS_Energy_parameters_manager_Ts2 , protocols::scoring::methods::pcsTs3::PCS_Energy_parameters_manager_Ts3 , protocols::scoring::methods::pcsTs4::PCS_Energy_parameters_manager_Ts4
• minimize_best_tensor_stage1_ : protocols::topology_broker::PseudocontactShiftEnergyController , protocols::topology_broker::PseudocontactShiftEnergyController_Ts1 , protocols::topology_broker::PseudocontactShiftEnergyController_Ts2 , protocols::topology_broker::PseudocontactShiftEnergyController_Ts3 , protocols::topology_broker::PseudocontactShiftEnergyController_Ts4
• minimize_best_tensor_stage2_ : protocols::topology_broker::PseudocontactShiftEnergyController , protocols::topology_broker::PseudocontactShiftEnergyController_Ts1 , protocols::topology_broker::PseudocontactShiftEnergyController_Ts2 , protocols::topology_broker::PseudocontactShiftEnergyController_Ts3 , protocols::topology_broker::PseudocontactShiftEnergyController_Ts4
• minimize_best_tensor_stage3_ : protocols::topology_broker::PseudocontactShiftEnergyController , protocols::topology_broker::PseudocontactShiftEnergyController_Ts1 , protocols::topology_broker::PseudocontactShiftEnergyController_Ts2 , protocols::topology_broker::PseudocontactShiftEnergyController_Ts3 , protocols::topology_broker::PseudocontactShiftEnergyController_Ts4
• minimize_best_tensor_stage4_ : protocols::topology_broker::PseudocontactShiftEnergyController , protocols::topology_broker::PseudocontactShiftEnergyController_Ts1 , protocols::topology_broker::PseudocontactShiftEnergyController_Ts2 , protocols::topology_broker::PseudocontactShiftEnergyController_Ts3 , protocols::topology_broker::PseudocontactShiftEnergyController_Ts4
• minimize_bond_angles_ : protocols::relax::RelaxProtocolBase
• minimize_bond_lengths_ : protocols::relax::RelaxProtocolBase
• minimize_bondangle_subset_ : protocols::relax::RelaxProtocolBase
• minimize_bondlength_subset_ : protocols::relax::RelaxProtocolBase
• minimize_cats_ : protocols::enzdes::EnzdesFlexBBProtocol
• minimize_dna_ : protocols::motifs::MotifDnaPacker
• minimize_in_stages_ : protocols::enzdes::EnzRepackMinimize
• minimize_jump_ : protocols::stepwise::modeler::rna::helix::RNA_HelixAssembler
• minimize_ligand_ : protocols::ligand_docking::LigandArea , protocols::ligand_docking::LigandDockProtocol
• minimize_ligand_torsions_ : protocols::enzdes::EnzdesBaseProtocol
• minimize_options_ : protocols::dna::DnaInterfacePacker
• minimize_prot_jumps_ : protocols::enzdes::EnzRepackMinimize
• minimize_res_ : protocols::stepwise::monte_carlo::mover::TransientCutpointHandler
• minimize_scorefxn_ : protocols::stepwise::modeler::StepWiseMinimizer
• minimize_single_res_ : protocols::stepwise::monte_carlo::mover::AddMover , protocols::stepwise::monte_carlo::mover::ResampleMover , protocols::stepwise::monte_carlo::StepWiseMonteCarlo
• minimize_single_res_frequency_ : protocols::stepwise::monte_carlo::options::StepWiseMonteCarloOptions
• minimize_structure_ : protocols::farna::RNA_DeNovoProtocol
• minimize_toward_stub_ : protocols::protein_interface_design::movers::PlaceOnLoop
• minimize_trial_ : protocols::docking::DockMinMover
• minimize_water_ : protocols::ligand_docking::LigandDockProtocol , protocols::ligand_docking::MoveMapBuilder
• minimized_pose_list_ : protocols::stepwise::legacy::modeler::rna::StepWiseRNA_Minimizer
• minimizer_ : protocols::electron_density::BfactorFittingMover , protocols::flexpep_docking::FlexPepDockingAbInitio , protocols::flexpep_docking::FlexPepDockingLowRes , protocols::hybridization::BackboneTorsionPerturbation , protocols::hybridization::BackboneTorsionSampler , protocols::loop_modeling::LoopBuilder , protocols::loops::loop_mover::refine::ShearMinCCDTrial , protocols::loops::loop_mover::refine::SmallMinCCDTrial , protocols::star::StarAbinitio , protocols::stepwise::modeler::rna::helix::RNA_HelixAssembler
• minimizer_dofs_after_minimization_ : protocols::optimize_weights::IterativeOptEDriver
• minimizer_dofs_before_minimization_ : protocols::optimize_weights::IterativeOptEDriver
• minimizer_dofs_mixed_ : protocols::optimize_weights::IterativeOptEDriver
• minimizer_options_ : protocols::loops::loop_mover::refine::SmallMinCCDTrial , protocols::stepwise::modeler::rna::helix::RNA_HelixAssembler , protocols::stepwise::modeler::StepWiseMinimizer
• minimizer_rename_tag_ : protocols::stepwise::modeler::options::StepWiseRNA_ModelerOptions
• minimizer_use_coordinate_constraints_ : protocols::farna::RNA_DeNovoProtocol
• minimum_peak_intensity_ : protocols::noesy_assign::PeakFileFormat_Base
• minimum_width_ : protocols::cluster::EnsembleConstraints_Simple
• miniPose_ : protocols::jumping::ResiduePairJump
• minlen : protocols::hybridization::TMalign
• minmover_ : protocols::docking::SidechainMinMover , protocols::simple_moves::TaskAwareMinMover , protocols::symmetric_docking::SymSidechainMinMover
• minoption_ : protocols::normalmode::NormalModeRelaxMover
• minPockSize_ : protocols::pockets::PocketGrid
• mintype_ : protocols::antibody::design::CDRGraftDesignOptions , protocols::grafting::AnchoredGraftMover
• minX : protocols::pockets::CCluster , protocols::pockets::PCluster
• minY : protocols::pockets::CCluster , protocols::pockets::PCluster
• minZ : protocols::pockets::CCluster , protocols::pockets::PCluster
• missing_pt_ : protocols::pockets::DarcParticleSwarmMinimizer , protocols::pockets::FingerprintMultifunc
• missing_weight_ : protocols::stepwise::monte_carlo::StepWiseMonteCarlo
• missing_weight_interval_ : protocols::stepwise::monte_carlo::StepWiseMonteCarlo
• mixing_factor_ : protocols::optimize_weights::IterativeOptEDriver
• mm : protocols::cartesian::MolecularDynamics
• mm_ : protocols::cryst::SetCrystWeightMover , protocols::frags::TorsionFragmentMover , protocols::hybridization::BackboneTorsionPerturbation , protocols::hybridization::BackboneTorsionSampler , protocols::normalmode::NormalModeRelaxMover , protocols::protein_interface_design::movers::PrepackMover , protocols::seeded_abinitio::SegmentHybridizer , protocols::stepwise::modeler::protein::loop_close::StepWiseProteinCCD_Closer
• mm_bondangle_library_ : protocols::branch_angle::BranchAngleOptimizer
• mman_ : protocols::simple_filters::MotifScoreFilter
• mmt_ : protocols::simple_moves::TorsionDOFMover
• mobile_label_ : protocols::rigid::UniformRigidBodyCM
• mobile_residues_ : protocols::environment::CoMTrackerCM
• mobile_selector_ : protocols::environment::CoMTrackerCM
• mod_segment_prod_ : protocols::fldsgn::MatchResidues
• mode_ : protocols::enzdes::ValueEvaluator , protocols::ligand_docking::ComputeLigandRDF , protocols::matdes::SymUnsatHbondFilter , protocols::moves::MonteCarloUtil , protocols::normalmode::NormalMode , protocols::pose_reporters::RMSDReporter , protocols::rbsegment_relax::MakeStarTopologyMover , protocols::rosetta_scripts::ParsedProtocol , protocols::simple_filters::TaskAwareScoreTypeFilter , protocols::toolbox::task_operations::SelectBySASAOperation , protocols::toolbox::task_operations::StoreCompoundTaskMover
• mode_scale_ : protocols::normalmode::NormalModeRelaxMover
• mode_using_ : protocols::normalmode::NormalModeRelaxMover
• model_and_remove_capping_residues_ : protocols::stepwise::modeler::rna::helix::RNA_HelixAssembler
• model_cdrs_ : protocols::antibody::design::AntibodyDesignModeler , protocols::antibody::design::AntibodyDesignMoverGenerator
• model_count : protocols::boinc::BoincSharedMemory
• model_count_ : protocols::canonical_sampling::TrajectoryRecorder
• model_h3_ : protocols::antibody::AntibodyModelerProtocol , protocols::antibody_legacy::AntibodyModeler
• model_low_energy : protocols::boinc::BoincSharedMemory
• model_low_energy_rmsd : protocols::boinc::BoincSharedMemory
• model_tag_ : protocols::stepwise::monte_carlo::StepWiseMonteCarlo
• model_weight_ : protocols::abinitio::PairingStatistics
• modeler_ : protocols::antibody::design::AntibodyDesignMover , protocols::antibody::design::AntibodyGraftDesignMover , protocols::antibody::design::AntibodySeqDesignMover
• modeler_scorefxn_ : protocols::stepwise::legacy::modeler::rna::StepWiseRNA_PoseSelection
• models_ : protocols::abinitio::PairingStatEntry
• models_per_file_ : protocols::contact_map::ContactMap
• modes_using_ : protocols::normalmode::NormalModeMinimizer , protocols::normalmode::NormalModeMultifunc
• modifiable_ : protocols::moves::ResId
• modify_after_jump_ : protocols::toolbox::task_operations::ProteinInterfaceDesignOperation
• modify_before_jump_ : protocols::toolbox::task_operations::ProteinInterfaceDesignOperation
• modify_unselected_residues_ : protocols::toolbox::task_operations::SelectResiduesWithinChainOperation
• modify_was_successful_ : protocols::forge::build::BuildManager
• molName : protocols::pockets::SmallMol
• moltenres_2_flexseg_ : protocols::flexpack::rotamer_set::FlexbbRotamerSets
• moltenres_2_resid_ : protocols::flexpack::interaction_graph::OTFFlexbbInteractionGraph , protocols::flexpack::rotamer_set::FlexbbRotamerSets
• moltenres_for_rotamer_ : protocols::flexpack::rotamer_set::FlexbbRotamerSets
• monoub_all_dof_map_ : protocols::ub_e2c::ubi_e2c_modeler
• monoub_ctr_of_mass_ : protocols::ub_e2c::ubi_e2c_modeler
• monoub_docking_map_ : protocols::ub_e2c::ubi_e2c_modeler
• monoub_end_ : protocols::ub_e2c::ubi_e2c_modeler
• monoub_flex_cter_map_ : protocols::ub_e2c::ubi_e2c_modeler
• monoub_mode_ : protocols::ub_e2c::ubi_e2c_modeler
• monte_carlo_ : protocols::canonical_sampling::MetropolisHastingsMover , protocols::canonical_sampling::TemperatureController , protocols::coarse_rna::CoarseRNA_DeNovoProtocol , protocols::farna::RNA_DeNovoProtocol , protocols::loop_modeling::LoopProtocol , protocols::loop_modeling::utilities::AcceptanceCheck , protocols::surface_docking::CentroidRelaxMover , protocols::surface_docking::FullatomRelaxMover
• monte_carlo_cycles_ : protocols::coarse_rna::CoarseRNA_DeNovoProtocol , protocols::farna::RNA_DeNovoProtocol
• monte_carlo_cycles_max_default_ : protocols::farna::RNA_DeNovoProtocol
• motif_cuts : protocols::simple_filters::SymmetricMotifFilter
• motif_forward_ : protocols::motifs::IRCollection
• motif_fragments_RMSD : protocols::motif_grafting::movers::motif2scaffold_data , protocols::motif_grafting::movers::MotifMatch
• motif_library_ : protocols::motifs::LigandMotifSearch , protocols::motifs::MotifSearch
• motif_match_results_ : protocols::motif_grafting::movers::MotifGraftMover
• motif_search_ : protocols::enzdes::AddLigandMotifRotamers , protocols::motifs::MotifDnaPacker
• motif_sets_ : protocols::matdes::SchemePlaceMotifsMover
• motif_source_ : protocols::motifs::IRCollection
• motifAtomIDs : protocols::motifs::Motif
• motifcop_ : protocols::motifs::MotifHit
• motifHigh : protocols::motif_grafting::movers::motif2scaffold_indexes
• motifLow : protocols::motif_grafting::movers::motif2scaffold_indexes
• movable_ : protocols::nonlocal::BiasedFragmentMover , protocols::nonlocal::Chunk , protocols::nonlocal::SingleFragmentMover
• movable_jumps_ : protocols::docking::DockingHighRes , protocols::docking::DockingHighResFilter , protocols::docking::DockingInitialPerturbation , protocols::docking::DockingLowRes , protocols::docking::DockingProtocol , protocols::docking::DockMCMCycle , protocols::docking::DockSetupMover , protocols::docking::RigidBodyInfo , protocols::docking::TemperedDocking , protocols::protein_interface_design::filters::FNatFilter , protocols::protein_interface_design::filters::IRmsdFilter , protocols::protein_interface_design::filters::LRmsdFilter , protocols::rigid::RigidBodyPerturbMover , protocols::rigid::RigidBodyPerturbNoCenterMover , protocols::symmetric_docking::SymDockProtocol , protocols::toolbox::task_operations::InterfaceTaskOperation
• move_ : protocols::stepwise::monte_carlo::StepWiseMonteCarlo
• move_distance : protocols::ligand_docking::Transform_info
• move_element_ : protocols::stepwise::monte_carlo::SWA_Move
• move_first_rigid_body_ : protocols::farna::RNA_DeNovoProtocol , protocols::farna::RNA_Minimizer
• move_jump_points_away_ : protocols::stepwise::monte_carlo::mover::TransientCutpointHandler
• move_jumps_between_chains_ : protocols::stepwise::legacy::modeler::protein::StepWiseProteinMinimizer , protocols::stepwise::modeler::options::StepWiseProteinModelerOptions
• move_map_ : protocols::loops::loop_mover::refine::LoopMover_Refine_CCD , protocols::simple_moves::CyclizationMover , protocols::simple_moves::RandomOmegaFlipMover , protocols::simple_moves::RandomTorsionMover , protocols::stepwise::legacy::modeler::rna::StepWiseRNA_Minimizer , protocols::surface_docking::FullatomRelaxMover
• move_takeoff_torsions_ : protocols::stepwise::legacy::modeler::protein::StepWiseProteinMinimizer
• move_type_ : protocols::stepwise::monte_carlo::SWA_Move
• moved_ : protocols::md::Rattle
• movemap_ : protocols::abinitio::abscript::AbscriptLoopCloserCM , protocols::abinitio::ClassicAbinitio , protocols::abinitio::KinematicControl , protocols::abinitio::MembraneAbinitio , protocols::antibody::CloseOneCDRLoop , protocols::antibody::LHRepulsiveRamp , protocols::docking::DockingHighResLegacy , protocols::docking::DockingLowRes , protocols::docking::DockMCMCycle , protocols::docking::DockMCMProtocol , protocols::docking::DockMinMover , protocols::docking::SidechainMinMover , protocols::flexpep_docking::FlexPepDockingAbInitio , protocols::flexpep_docking::FlexPepDockingLowRes , protocols::flexpep_docking::FlexPepDockingProtocol , protocols::floppy_tail::FloppyTailMover , protocols::flxbb::FlxbbDesign , protocols::grafting::AnchoredGraftMover , protocols::LoopRebuild , protocols::loops::loop_closure::ccd::CCDLoopClosureMover , protocols::loops::loop_closure::ccd::LoopClosure , protocols::loops::loop_closure::ccd::SlidingWindowLoopClosure , protocols::loops::loop_closure::kinematic_closure::KinematicPerturber , protocols::loops::loop_mover::refine::LoopRefineInnerCycle , protocols::md::MDBase , protocols::normalmode::NormalModeMinimizer , protocols::rbsegment_relax::AutoRBMover , protocols::rbsegment_relax::CCDMoveWrapper , protocols::relax::CentroidRelax , protocols::relax::RelaxProtocolBase , protocols::seeded_abinitio::SeedSetupMover , protocols::simple_moves::BackboneMover , protocols::simple_moves::BBGaussianMover , protocols::simple_moves::DisulfideInsertionMover , protocols::simple_moves::FragmentMover , protocols::simple_moves::MinMover , protocols::simple_moves::RingConformationMover , protocols::simple_moves::SaneMinMover , protocols::symmetric_docking::SymDockingHiRes , protocols::symmetric_docking::SymDockingLowRes , protocols::symmetric_docking::SymSidechainMinMover , protocols::toolbox::task_operations::RestrictToMoveMapChiOperation , protocols::topology_broker::FragmentClaimer
• movemap_builder_ : protocols::ligand_docking::FinalMinimizer , protocols::ligand_docking::HighResDocker
• movemap_cen_all_ : protocols::anchored_design::AnchorMoversData
• movemap_fa_all_ : protocols::anchored_design::AnchorMoversData
• movemap_from_blueprint_ : protocols::flxbb::FlxbbDesign
• movemap_lesstail_ : protocols::floppy_tail::FloppyTailMover
• movemap_minimizer_ : protocols::flexpep_docking::FlexPepDockingProtocol
• movemap_reset_ : protocols::docking::DockMCMProtocol
• movemap_set_ : protocols::toolbox::task_operations::RestrictToMoveMapChiOperation
• movemap_tag_ : protocols::relax::FastRelax
• mover_ : protocols::abinitio::abscript::FragmentCM , protocols::antibody::design::AntibodyDesignMoverGenerator , protocols::comparative_modeling::RecoverSideChainsMover , protocols::enzdes::RemoveLigandFilter , protocols::flxbb::DesignTask , protocols::loop_modeling::samplers::LegacyKicSampler , protocols::loops::loop_mover::LoopCM , protocols::moves::FilterReporterMover , protocols::moves::RampingMover , protocols::moves::RepeatMover , protocols::moves::TrialMover , protocols::moves::WhileMover , protocols::protein_interface_design::movers::LoopOver , protocols::protein_interface_design::movers::SubroutineMover , protocols::rigid::UniformRigidBodyCM , protocols::rotamer_recovery::RRProtocolMover , protocols::simple_moves::ContingentAcceptMover , protocols::simple_moves::GenericMonteCarloMover , protocols::simple_moves::rational_mc::RationalMonteCarlo , protocols::topology_broker::FragmentClaimer
• mover_creator_map_ : protocols::moves::MoverFactory
• mover_cycles_ : protocols::loop_modeling::LoopProtocol
• mover_generator_ : protocols::antibody::design::AntibodyGraftDesignMover
• mover_list_ : protocols::wum::MoverList
• mover_mc_trial_count : protocols::boinc::BoincSharedMemory
• mover_stopping_condition_ : protocols::simple_moves::GenericMonteCarloMover
• mover_tag_ : protocols::rosetta_scripts::AdditionalOutputWrapper , protocols::rosetta_scripts::MultipleOutputWrapper , protocols::simple_moves::GenericMonteCarloMover , protocols::topology_broker::FragmentClaimer
• mover_type_text : protocols::boinc::BoincSharedMemory
• moverkey_ : protocols::abinitio::abscript::FragmentJumpCM , protocols::abinitio::abscript::JumpSampleData
• movers_ : protocols::abinitio::abscript::AbscriptStageMover , protocols::canonical_sampling::MetropolisHastingsMover , protocols::environment::EnvMover , protocols::loop_modeling::LoopProtocol , protocols::moves::CompositionMover , protocols::moves::CyclicMover , protocols::moves::MoverContainer , protocols::rosetta_scripts::ParsedProtocol
• movers_and_passes_ : protocols::environment::EnvClaimBroker
• movertype : protocols::mpi_refinement::MethodParams
• moveset_phase1_ : protocols::relax::ClassicRelax
• moveset_phase2_ : protocols::relax::ClassicRelax
• moveset_phase3_ : protocols::relax::ClassicRelax
• movie_file_accepted_ : protocols::stepwise::monte_carlo::StepWiseMonteCarlo
• movie_file_trial_ : protocols::stepwise::monte_carlo::StepWiseMonteCarlo
• moving_atom_name_ : protocols::stepwise::screener::AnchorSugarScreener
• moving_atoms_ : protocols::electron_density::BfactorMultifunc
• moving_distance_ : protocols::normalmode::NormalModeRelaxMover
• moving_partition_res_ : protocols::stepwise::modeler::rna::phosphate::MultiPhosphateSampler , protocols::stepwise::modeler::StepWiseConnectionSampler , protocols::stepwise::sampler::rigid_body::RigidBodyStepWiseSampler
• moving_phosphate_virtualized_ : protocols::stepwise::modeler::rna::sugar::StepWiseRNA_VirtualSugarSampler
• moving_res : protocols::stepwise::modeler::rna::sugar::SugarModeling
• moving_res_ : protocols::stepwise::legacy::modeler::rna::StepWiseWorkingParametersSetup , protocols::stepwise::modeler::rna::bulge::BulgeApplyMover , protocols::stepwise::modeler::rna::bulge::BulgeUnApplyMover , protocols::stepwise::modeler::rna::checker::RNA_AtrRepChecker , protocols::stepwise::modeler::rna::o2prime::O2PrimePacker , protocols::stepwise::modeler::rna::sugar::StepWiseRNA_VirtualSugarJustInTimeInstantiator , protocols::stepwise::modeler::rna::sugar::SugarInstantiateMover , protocols::stepwise::modeler::rna::sugar::SugarVirtualizeMover , protocols::stepwise::modeler::StepWiseConnectionSampler , protocols::stepwise::modeler::StepWiseModeler , protocols::stepwise::modeler::working_parameters::StepWiseBasicWorkingParameters , protocols::stepwise::sampler::rigid_body::RigidBodyStepWiseSampler , protocols::stepwise::screener::CentroidDistanceScreener , protocols::stepwise::screener::FastForwardToNextResidueAlternative , protocols::stepwise::screener::SugarInstantiator , protocols::stepwise::screener::TagDefinition , protocols::stepwise::screener::VDW_BinScreener , protocols::topology_broker::AsymFoldandDockClaimer
• moving_res_base_state : protocols::stepwise::modeler::rna::sugar::SugarModeling
• moving_res_base_stub_ : protocols::stepwise::modeler::StepWiseConnectionSampler , protocols::stepwise::screener::BaseCentroidScreener , protocols::stepwise::screener::RNA_ChainClosableGeometryStubBasedScreener , protocols::stepwise::screener::StubDistanceScreener , protocols::stepwise::screener::VDW_BinScreener
• moving_res_contact_dist_cutoff_ : protocols::stepwise::modeler::rna::StepWiseRNA_CombineLongLoopFilterer
• moving_res_legacy_ : protocols::stepwise::modeler::rna::sugar::StepWiseRNA_VirtualSugarJustInTimeInstantiator
• moving_res_list_ : protocols::stepwise::legacy::modeler::protein::StepWiseProteinPoseSetup , protocols::stepwise::legacy::modeler::rna::StepWiseWorkingParametersSetup , protocols::stepwise::legacy::screener::SimplePoseSelection , protocols::stepwise::modeler::protein::checker::ProteinAtrRepChecker , protocols::stepwise::modeler::StepWiseConnectionSampler , protocols::stepwise::modeler::StepWiseModeler , protocols::stepwise::screener::NativeRMSD_Screener , protocols::stepwise::screener::PartitionContactScreener
• moving_res_pucker_state : protocols::stepwise::modeler::rna::sugar::SugarModeling
• moving_res_stub_ : protocols::stepwise::sampler::rigid_body::RigidBodyStepWiseSampler
• moving_res_to_base_contact_only_ : protocols::stepwise::modeler::rna::StepWiseRNA_CombineLongLoopFilterer
• moving_residue_at_origin_ : protocols::stepwise::sampler::rigid_body::RigidBodyStepWiseSampler
• moving_residues_ : protocols::stepwise::legacy::modeler::protein::StepWiseProteinMinimizer , protocols::stepwise::modeler::protein::loop_close::StepWiseProteinCCD_Closer , protocols::stepwise::modeler::protein::loop_close::StepWiseProteinCCD_MultiPoseCloser , protocols::stepwise::modeler::protein::StepWiseProteinBackboneSampler , protocols::stepwise::modeler::rna::checker::RNA_BaseCentroidChecker
• moving_residues_input_ : protocols::stepwise::modeler::protein::StepWiseProteinBackboneSampler
• moving_rsd_at_origin : protocols::stepwise::screener::SampleApplier
• moving_rsd_at_origin_ : protocols::stepwise::screener::RNA_ChainClosableGeometryStubBasedScreener
• moving_rsd_at_origin_list : protocols::stepwise::screener::SampleApplier
• moving_rsd_at_origin_list_ : protocols::stepwise::screener::RNA_ChainClosableGeometryStubBasedScreener
• moving_suite_ : protocols::stepwise::legacy::modeler::rna::RNA_AnalyticLoopCloser , protocols::stepwise::sampler::rna::RNA_KIC_Sampler , protocols::stepwise::sampler::rna::RNA_KinematicCloser
• MPI_bcast_ : protocols::canonical_sampling::CanonicalSamplingMover
• mpi_channel_ : protocols::jd2::SingleFileBuffer
• mpi_feedback_ : protocols::loophash::MPI_LoopHashRefine , protocols::mpi_refinement::MPI_Refinement
• mpi_master_save_score_only_ : protocols::loophash::MPI_LoopHashRefine_Master , protocols::mpi_refinement::MPI_Refine_Master
• mpi_metropolis_temp_ : protocols::loophash::MPI_LoopHashRefine , protocols::mpi_refinement::MPI_Refinement
• MPI_nprocs_ : protocols::optimize_weights::IterativeOptEDriver
• mpi_nprocs_ : protocols::optimize_weights::OptEMultifunc
• MPI_nprocs_ : protocols::pack_daemon::MPIMultistateFitnessFunction , protocols::pmut_scan::PointMutScanDriver
• MPI_rank_ : protocols::optimize_weights::IterativeOptEDriver
• mpi_rank_ : protocols::optimize_weights::OptEMultifunc
• MPI_rank_ : protocols::pmut_scan::PointMutScanDriver
• mpi_resume_ : protocols::loophash::MPI_LoopHashRefine , protocols::mpi_refinement::MPI_Refinement
• MPI_synchronize_pools_ : protocols::canonical_sampling::CanonicalSamplingMover
• mrlod_ : protocols::make_rot_lib::MakeRotLibJob , protocols::make_rot_lib::MakeRotLibJobInputter
• ms_whenfail_ : protocols::moves::FilterMover , protocols::protein_interface_design::movers::LoopOver
• mseq_ : protocols::hybridization::DDomainParse
• msg_ : protocols::rpc::JSON_RPC
• msg_tag : protocols::jd2::archive::MPIArchiveJobDistributor::CompletionMessage
• msr_ : protocols::metal_interface::AddZincSiteConstraints , protocols::metal_interface::ZincSiteFinder
• mulfactor_ : protocols::mpi_refinement::StructAvrgMover
• multi_origin_list_ : protocols::pockets::FingerprintBase
• multi_relative_ : protocols::simple_filters::Operator
• multi_use_ : protocols::protein_interface_design::movers::SaveAndRetrieveSidechains
• multicomp_ : protocols::matdes::InterfacePackingFilter , protocols::matdes::OligomericAverageDegreeFilter , protocols::simple_filters::ShapeComplementarityFilter
• multicomponent_ : protocols::matdes::BuildingBlockInterfaceOperation
• multifunc_ : protocols::optimize_weights::WrappedOptEExpressionCreator , protocols::optimize_weights::WrapperOptEMultifunc
• multiple_domain_mover_ : protocols::coarse_rna::CoarseRNA_DeNovoProtocol
• multiple_jumps_ : protocols::docking::DockingInitialPerturbation
• multiplier_ : protocols::inputter::FastaInputter , protocols::inputter::PDBInputter , protocols::inputter::SilentFileInputter , protocols::optimize_weights::PNatLigPoseOptEData , protocols::stepwise::legacy::modeler::rna::StepWiseRNA_PoseSelection
• multiply_over_all_ : protocols::inputter::FastaInputter , protocols::inputter::PDBInputter , protocols::inputter::SilentFileInputter
• multistate_packer_ : protocols::dna::DnaInterfaceMultiStateDesign , protocols::protein_interface_design::movers::ProteinInterfaceMultiStateDesignMover
• must_switch_bins_ : protocols::generalized_kinematic_closure::perturber::GeneralizedKICperturber , protocols::simple_moves::bin_transitions::PerturbByBins
• mut_aa_ : protocols::optimize_weights::DDGMutationOptEData , protocols::unfolded_state_energy_calculator::UnfoldedStateEnergyCalculatorMover
• mut_residue_ : protocols::pmut_scan::MutationData
• mut_unfolded_energies_emap_ : protocols::optimize_weights::NestedEnergyTermDDGMutationOptEData
• mutant_complexes_ : protocols::optimize_weights::DDGBindOptEData
• mutant_components_ : protocols::ddg::ddGMover
• mutant_unbound_components_ : protocols::ddg::ddGMover
• mutant_unbounds_ : protocols::optimize_weights::DDGBindOptEData
• mutants_ : protocols::ddg::ddGMover
• mutants_list_ : protocols::pmut_scan::PointMutScanDriver
• mutants_list_file_ : protocols::pmut_scan::PointMutScanDriver
• mutate_rate_ : protocols::dna::DnaInterfaceMultiStateDesign , protocols::protein_interface_design::movers::ProteinInterfaceMultiStateDesignMover
• mutate_to_glycine_ : protocols::simple_moves::RepulsiveOnlyMover
• mutation_rate_ : protocols::genetic_algorithm::EntityRandomizer
• mutation_threshold_ : protocols::protein_interface_design::filters::SequenceRecoveryFilter , protocols::simple_filters::MutationsFilter
• mutations_ : protocols::optimize_weights::DDGBindOptEData , protocols::pmut_scan::Mutant , protocols::protein_interface_design::filters::SequenceRecoveryFilter , protocols::simple_filters::MutationsFilter
• muts_ : protocols::optimize_weights::DDGMutationOptEData
• my_constraints_ : protocols::ligand_docking::ResidueTorsionRestraints
• my_emperor_ : protocols::loophash::MPI_LoopHashRefine_Master , protocols::mpi_refinement::MPI_Refine_Master
• my_filter_ : protocols::moves::FilterMover
• my_hits_for_target_hit_map_ : protocols::match::downstream::SecondaryMatcherToUpstreamResidue
• my_master_ : protocols::wum::MPI_WorkUnitManager_Slave
• my_mover_ : protocols::moves::FilterMover , protocols::simple_moves::DME_FilterMover
• my_provider_ : protocols::frag_picker::VallChunk
• my_rank_ : protocols::jd2::MpiFileBuffer
• my_window_ : protocols::viewer::ConformationViewer
• myslaves_ : protocols::mpi_refinement::MPI_Refine_Master