| acc_ | protocols::md::MDBase | protected |
| apply(core::pose::Pose &pose) | protocols::md::CartesianMD | virtual |
| protocols::moves::Mover::apply(core::io::serialization::PipeMap &pmap) | protocols::moves::Mover | virtual |
| Berendsen_Integrator(core::pose::Pose &pose, core::optimization::CartesianMinimizerMap &min_map) | protocols::md::CartesianMD | private |
| CartesianMD() | protocols::md::CartesianMD | |
| CartesianMD(core::pose::Pose const &pose, core::scoring::ScoreFunctionCOP sfxn, core::kinematics::MoveMapCOP movemap) | protocols::md::CartesianMD | |
| clear_info() | protocols::moves::Mover | inlinevirtual |
| clone() const | protocols::md::CartesianMD | virtual |
| constrained_ | protocols::md::MDBase | protected |
| context_update_step_ | protocols::md::MDBase | protected |
| create() | protocols::moves::Mover | virtual |
| cst_on_pose(pose::Pose &pose) | protocols::md::MDBase | |
| cst_sdev_ | protocols::md::MDBase | protected |
| cummulative_time() | protocols::md::MDBase | inline |
| cummulative_time_ | protocols::md::MDBase | protected |
| do_initialize(core::pose::Pose &pose, core::Real const &temp0) | protocols::md::CartesianMD | private |
| do_MD(core::pose::Pose &pose, core::Size const &nstep, core::Real const &temp0=300, bool const &initialize=false) | protocols::md::CartesianMD | private |
| do_minimize(pose::Pose &pose, core::optimization::MinimizerOptions const &options, bool const &show_energy) | protocols::md::CartesianMD | private |
| dt() | protocols::md::MDBase | inline |
| dt_ | protocols::md::MDBase | protected |
| dump_poses(pose::Pose const &pose_ref) const | protocols::md::CartesianMD | |
| Emin_obj_ | protocols::md::MDBase | protected |
| Filters_map typedef | protocols::moves::Mover | |
| fresh_instance() const | protocols::md::CartesianMD | inlinevirtual |
| get_additional_output() | protocols::moves::Mover | virtual |
| get_current_job() const | protocols::moves::Mover | |
| get_current_tag() const | protocols::moves::Mover | inline |
| get_input_pose() const | protocols::moves::Mover | |
| get_last_move_status() const | protocols::moves::Mover | |
| get_name() const | protocols::md::CartesianMD | virtual |
| get_native_info(pose::Pose const &pose) | protocols::md::CartesianMD | private |
| get_native_pose() const | protocols::moves::Mover | |
| get_type() const | protocols::moves::Mover | inline |
| info() | protocols::moves::Mover | inlinevirtual |
| info() const | protocols::moves::Mover | inlinevirtual |
| init() | protocols::md::CartesianMD | |
| initialize_velocity(core::Real const &temperature) | protocols::md::CartesianMD | private |
| inittime_ | protocols::md::CartesianMD | private |
| kinetic_energy_ | protocols::md::MDBase | protected |
| last_proposal_density_ratio() | protocols::moves::Mover | inlinevirtual |
| mass_ | protocols::md::MDBase | protected |
| md_report_stepsize_ | protocols::md::MDBase | protected |
| MDBase() | protocols::md::MDBase | inline |
| mdsch_ | protocols::md::MDBase | protected |
| min_map_ | protocols::md::CartesianMD | private |
| movemap() const | protocols::md::CartesianMD | inlinevirtual |
| movemap_ | protocols::md::MDBase | protected |
| Mover() | protocols::moves::Mover | |
| Mover(std::string const &type_name) | protocols::moves::Mover | |
| Mover(Mover const &other) | protocols::moves::Mover | |
| Multivec typedef | protocols::md::MDBase | |
| n_dof() | protocols::md::MDBase | inline |
| n_dof_ | protocols::md::MDBase | protected |
| n_dof_temp_ | protocols::md::MDBase | protected |
| name() | protocols::moves::Mover | inlinestatic |
| native_ | protocols::md::CartesianMD | private |
| native_given_ | protocols::md::CartesianMD | private |
| native_resmap_ | protocols::md::CartesianMD | private |
| ncyc_postmin_ | protocols::md::MDBase | protected |
| ncyc_premin_ | protocols::md::MDBase | protected |
| nstep() | protocols::md::MDBase | inline |
| nstep_ | protocols::md::MDBase | protected |
| operator=(Mover const &other) | protocols::moves::Mover | |
| parent typedef | protocols::md::MDBase | |
| parse_def(utility::lua::LuaObject const &def, utility::lua::LuaObject const &score_fxns, utility::lua::LuaObject const &tasks, MoverCacheSP cache) | protocols::moves::Mover | virtual |
| parse_movemap(TagCOP tag, basic::datacache::DataMap &data, Pose const &pose) | protocols::md::CartesianMD | |
| parse_my_tag(TagCOP, basic::datacache::DataMap &, Filters_map const &, protocols::moves::Movers_map const &, Pose const &) | protocols::md::CartesianMD | virtual |
| parse_opts(TagCOP tag, basic::datacache::DataMap &data, Pose const &pose) | protocols::md::CartesianMD | |
| parse_schfile(std::string const schfile) | protocols::md::MDBase | |
| parse_state(SerializableState const &state) | protocols::moves::Mover | virtual |
| Pose typedef | protocols::moves::Mover | |
| pose0_ | protocols::md::MDBase | protected |
| pose_minobj_ | protocols::md::MDBase | protected |
| PoseCOP typedef | protocols::moves::Mover | |
| potential_energy_ | protocols::md::MDBase | protected |
| register_options() | protocols::moves::Mover | inlinestatic |
| reinitialize_for_each_job() const | protocols::moves::Mover | virtual |
| reinitialize_for_new_input() const | protocols::moves::Mover | virtual |
| report_MD(core::pose::Pose &pose) | protocols::md::CartesianMD | private |
| report_scorecomp_ | protocols::md::MDBase | protected |
| reset_status() | protocols::moves::Mover | |
| save_state(SerializableState &state) | protocols::moves::Mover | virtual |
| scheduled_ | protocols::md::MDBase | protected |
| scorefxn() | protocols::md::MDBase | inline |
| scorefxn() const | protocols::md::MDBase | inline |
| scorefxn_ | protocols::md::MDBase | protected |
| scorefxn_obj_ | protocols::md::MDBase | protected |
| selectmode_ | protocols::md::MDBase | protected |
| set_constraint(Real const sdev) | protocols::md::MDBase | |
| set_context_update_step(Size const value) | protocols::md::MDBase | inline |
| set_current_job(protocols::jobdist::BasicJobCOP job) | protocols::moves::Mover | |
| set_current_tag(std::string const &new_tag) | protocols::moves::Mover | inline |
| set_defaults() | protocols::md::MDBase | inline |
| set_input_pose(PoseCOP pose) | protocols::moves::Mover | virtual |
| set_last_move_status(MoverStatus status) | protocols::moves::Mover | protected |
| set_movemap(core::pose::Pose const &, core::kinematics::MoveMapCOP movemap) | protocols::md::CartesianMD | virtual |
| set_native_pose(PoseCOP pose) | protocols::moves::Mover | virtual |
| set_nstep(core::Size const nstep) | protocols::md::MDBase | inline |
| set_premin(Size const value) | protocols::md::MDBase | inline |
| set_report_scorecomp(bool const value) | protocols::md::MDBase | inline |
| set_reportstep(core::Size const nstep) | protocols::md::MDBase | inline |
| set_scorefxn_obj(core::scoring::ScoreFunctionCOP sfxn) | protocols::md::MDBase | inline |
| set_selectmode(std::string const selectmode_in) | protocols::md::MDBase | inline |
| set_store_trj(bool const value) | protocols::md::MDBase | inline |
| set_temperature(core::Real const temp0) | protocols::md::MDBase | inline |
| show(std::ostream &output=std::cout) const | protocols::moves::Mover | virtual |
| store_trj() const | protocols::md::MDBase | inline |
| store_trj_ | protocols::md::MDBase | protected |
| Strings typedef | protocols::moves::Mover | |
| TagCOP typedef | protocols::moves::Mover | |
| temp0() | protocols::md::MDBase | inline |
| temp0_ | protocols::md::MDBase | protected |
| temperature_ | protocols::md::MDBase | protected |
| test_move(Pose &pose) | protocols::moves::Mover | inlinevirtual |
| time_minobj_ | protocols::md::MDBase | protected |
| trj_ | protocols::md::MDBase | protected |
| type() const | protocols::moves::Mover | inline |
| type(const std::string &type_in) | protocols::moves::Mover | inline |
| use_rattle(bool const value) | protocols::md::CartesianMD | inline |
| use_rattle_ | protocols::md::CartesianMD | private |
| vel_ | protocols::md::MDBase | protected |
| VelocityVerlet_Integrator(core::pose::Pose &pose, core::optimization::CartesianMinimizerMap &min_map, md::Rattle &rattle) | protocols::md::CartesianMD | private |
| xyz_ | protocols::md::MDBase | protected |
| ~CartesianMD() | protocols::md::CartesianMD | virtual |
| ~MDBase() | protocols::md::MDBase | inline |
| ~Mover() | protocols::moves::Mover | virtual |
1.8.7