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protocols::md::MDBase Member List

This is the complete list of members for protocols::md::MDBase, including all inherited members.

acc() const protocols::md::MDBaseinline
acc(core::Size idof)protocols::md::MDBaseinline
acc_protocols::md::MDBaseprivate
add_trj(core::optimization::Multivec xyz)protocols::md::MDBaseinline
add_trj_scratch(core::optimization::Multivec xyz)protocols::md::MDBaseinline
apply(core::pose::Pose &pose) override=0protocols::md::MDBasepure virtual
clear_info()protocols::moves::Moverinlinevirtual
clone() const protocols::moves::Movervirtual
context_update_step() const protocols::md::MDBaseinline
context_update_step_protocols::md::MDBaseprivate
create()protocols::moves::Movervirtual
cst_sdev() const protocols::md::MDBaseinline
cst_sdev_protocols::md::MDBaseprivate
cummulative_time() const protocols::md::MDBaseinline
cummulative_time_protocols::md::MDBaseprivate
dt() const protocols::md::MDBaseinline
dt_protocols::md::MDBaseprivate
Emin_obj() const protocols::md::MDBaseinline
Emin_obj_protocols::md::MDBaseprivate
fresh_instance() const protocols::moves::Movervirtual
Gamma() const protocols::md::MDBaseinline
Gamma_protocols::md::MDBaseprivate
get_additional_output()protocols::moves::Movervirtual
get_current_job() const protocols::moves::Mover
get_current_tag() const protocols::moves::Moverinline
get_input_pose() const protocols::moves::Mover
get_last_move_status() const protocols::moves::Mover
get_name() const override=0protocols::md::MDBasepure virtual
get_native_pose() const protocols::moves::Mover
get_self_ptr() const protocols::moves::Moverinline
get_self_ptr()protocols::moves::Moverinline
get_self_weak_ptr() const protocols::moves::Moverinline
get_self_weak_ptr()protocols::moves::Moverinline
get_type() const protocols::moves::Moverinline
info()protocols::moves::Moverinlinevirtual
info() const protocols::moves::Moverinlinevirtual
init()protocols::md::MDBase
Kappa() const protocols::md::MDBaseinline
Kappa_protocols::md::MDBaseprivate
kinetic_energy() const protocols::md::MDBaseinline
kinetic_energy_protocols::md::MDBaseprivate
last_proposal_density_ratio()protocols::moves::Moverinlinevirtual
mass() const protocols::md::MDBaseinline
mass(core::Size iatm) const protocols::md::MDBaseinline
mass_protocols::md::MDBaseprivate
md_energy_report_stepsize() const protocols::md::MDBaseinline
md_energy_report_stepsize_protocols::md::MDBaseprivate
md_report_stepsize() const protocols::md::MDBaseinline
md_report_stepsize_protocols::md::MDBaseprivate
md_rsr_update_stepsize() const protocols::md::MDBaseinline
md_rsr_update_stepsize_protocols::md::MDBaseprivate
MDBase()protocols::md::MDBase
mdsch() const protocols::md::MDBaseinline
mdsch(core::Size istep) const protocols::md::MDBaseinline
mdsch_protocols::md::MDBaseprivate
movemap() const protocols::md::MDBaseinline
movemap_protocols::md::MDBaseprivate
Mover()protocols::moves::Mover
Mover(std::string const &type_name)protocols::moves::Mover
n_dof() const protocols::md::MDBaseinline
n_dof_protocols::md::MDBaseprivate
n_dof_temp() const protocols::md::MDBaseinline
n_dof_temp_protocols::md::MDBaseprivate
name()protocols::moves::Moverinlinestatic
ncyc_postmin() const protocols::md::MDBaseinline
ncyc_postmin_protocols::md::MDBaseprivate
ncyc_premin() const protocols::md::MDBaseinline
ncyc_premin_protocols::md::MDBaseprivate
nstep() const protocols::md::MDBaseinline
nstep_protocols::md::MDBaseprivate
parent typedefprotocols::md::MDBase
parse_my_tag(TagCOP tag, basic::datacache::DataMap &data)protocols::moves::Movervirtual
parse_schfile(std::string const schfile)protocols::md::MDBase
Pose typedefprotocols::moves::Mover
pose0() const protocols::md::MDBaseinline
pose0_protocols::md::MDBaseprivate
pose_minobj() const protocols::md::MDBaseinline
pose_minobj_protocols::md::MDBaseprivate
PoseCOP typedefprotocols::moves::Mover
potential_energy() const protocols::md::MDBaseinline
potential_energy_protocols::md::MDBaseprivate
provide_citation_info(basic::citation_manager::CitationCollectionList &) const protocols::moves::Movervirtual
prv_eqxyz() const protocols::md::MDBaseinline
prv_eqxyz_protocols::md::MDBaseprivate
ref_xyz() const protocols::md::MDBaseinline
ref_xyz_protocols::md::MDBaseprivate
register_options()protocols::moves::Moverinlinestatic
reinitialize_for_each_job() const protocols::moves::Movervirtual
reinitialize_for_new_input() const protocols::moves::Movervirtual
renew_trj_scratch()protocols::md::MDBaseinline
report_as_silent() const protocols::md::MDBaseinline
report_as_silent_protocols::md::MDBaseprivate
report_scorecomp() const protocols::md::MDBaseinline
report_scorecomp_protocols::md::MDBaseprivate
report_silent(core::pose::Pose &pose, core::Real rmsd=-1.0, core::Real gdttm=-1.0, core::Real gdtha=-1.0)protocols::md::MDBase
reset_status()protocols::moves::Mover
resize_natm_variables()protocols::md::MDBase
rsrfilename() const protocols::md::MDBaseinline
rsrfilename_protocols::md::MDBaseprivate
scheduled() const protocols::md::MDBaseinline
scheduled_protocols::md::MDBaseprivate
scorefxn() const protocols::md::MDBaseinline
scorefxn_protocols::md::MDBaseprivate
scorefxn_obj() const protocols::md::MDBaseinline
scorefxn_obj_protocols::md::MDBaseprivate
selectmode() const protocols::md::MDBaseinline
selectmode_protocols::md::MDBaseprivate
set_acc(core::optimization::Multivec setting)protocols::md::MDBaseinline
set_constraint(core::Real const sdev)protocols::md::MDBase
set_context_update_step(core::Size setting)protocols::md::MDBaseinline
set_cst_sdev(core::Real setting)protocols::md::MDBaseinline
set_cummulative_time(core::Real setting)protocols::md::MDBaseinline
set_current_job(protocols::jobdist::BasicJobCOP job)protocols::moves::Mover
set_current_tag(std::string const &new_tag)protocols::moves::Moverinlinevirtual
set_defaults()protocols::md::MDBaseinline
set_dt(core::Real setting)protocols::md::MDBaseinline
set_Emin_obj(core::Real setting)protocols::md::MDBaseinline
set_Gamma(core::Real setting)protocols::md::MDBaseinline
set_input_pose(PoseCOP pose)protocols::moves::Movervirtual
set_Kappa(core::Real setting)protocols::md::MDBaseinline
set_kinetic_energy(core::Real setting)protocols::md::MDBaseinline
set_last_move_status(MoverStatus status)protocols::moves::Moverprotected
set_mass(core::Size iatm, core::Real setting)protocols::md::MDBaseinline
set_md_energy_report_stepsize(core::Size setting)protocols::md::MDBaseinline
set_md_report_stepsize(core::Size setting)protocols::md::MDBaseinline
set_md_rsr_update_stepsize(core::Size setting)protocols::md::MDBaseinline
set_mdsch(utility::vector1< MDscheduleData > setting)protocols::md::MDBaseinline
set_movemap(core::pose::Pose const &pose, core::kinematics::MoveMapCOP movemap)protocols::md::MDBasevirtual
set_n_dof(core::Size setting)protocols::md::MDBaseinline
set_n_dof_temp(core::Size setting)protocols::md::MDBaseinline
set_native_pose(PoseCOP pose)protocols::moves::Movervirtual
set_ncyc_postmin(core::Size setting)protocols::md::MDBaseinline
set_ncyc_premin(core::Size setting)protocols::md::MDBaseinline
set_nstep(core::Size setting)protocols::md::MDBaseinline
set_pose0(core::pose::Pose setting)protocols::md::MDBaseinline
set_pose_minobj(core::pose::Pose setting)protocols::md::MDBaseinline
set_potential_energy(core::Real setting)protocols::md::MDBaseinline
set_prv_eqxyz(core::optimization::Multivec setting)protocols::md::MDBaseinline
set_ref_xyz(core::optimization::Multivec setting)protocols::md::MDBaseinline
set_report_as_silent(bool setting)protocols::md::MDBaseinline
set_report_scorecomp(bool setting)protocols::md::MDBaseinline
set_rsrfilename(std::string setting)protocols::md::MDBaseinline
set_scheduled(bool setting)protocols::md::MDBaseinline
set_scorefxn(core::scoring::ScoreFunctionCOP setting)protocols::md::MDBaseinline
set_scorefxn(core::scoring::ScoreFunction const &setting)protocols::md::MDBaseinline
set_scorefxn_obj(core::scoring::ScoreFunctionCOP setting)protocols::md::MDBaseinline
set_scorefxn_obj(core::scoring::ScoreFunction const &setting)protocols::md::MDBaseinline
set_selectmode(std::string setting)protocols::md::MDBaseinline
set_silentname(std::string setting)protocols::md::MDBaseinline
set_store_trj(bool setting)protocols::md::MDBaseinline
set_temp0(core::Real setting)protocols::md::MDBaseinline
set_temperature(core::Real setting)protocols::md::MDBaseinline
set_time_minobj(core::Real setting)protocols::md::MDBaseinline
set_trj(utility::vector1< core::optimization::Multivec > setting)protocols::md::MDBaseinline
set_trj_score_only(bool setting)protocols::md::MDBaseinline
set_trj_scratch(utility::vector1< core::optimization::Multivec > setting)protocols::md::MDBaseinline
set_type(std::string const &setting)protocols::moves::Moverinline
set_uniform_coord_constrained(bool setting)protocols::md::MDBaseinline
set_vel(core::optimization::Multivec setting)protocols::md::MDBaseinline
set_write_dynamic_rsr(bool setting)protocols::md::MDBaseinline
set_write_dynamic_rsr(std::string const filename)protocols::md::MDBaseinline
set_xyz(core::optimization::Multivec setting)protocols::md::MDBaseinline
show(std::ostream &output=std::cout) const protocols::moves::Movervirtual
silentname() const protocols::md::MDBaseinline
silentname_protocols::md::MDBaseprivate
store_trj() const protocols::md::MDBaseinline
store_trj_protocols::md::MDBaseprivate
Strings typedefprotocols::moves::Mover
TagCOP typedefprotocols::moves::Mover
temp0() const protocols::md::MDBaseinline
temp0_protocols::md::MDBaseprivate
temperature() const protocols::md::MDBaseinline
temperature_protocols::md::MDBaseprivate
test_move(Pose &pose)protocols::moves::Moverinlinevirtual
time_minobj() const protocols::md::MDBaseinline
time_minobj_protocols::md::MDBaseprivate
trj() const protocols::md::MDBaseinline
trj(core::Size itrj) const protocols::md::MDBaseinline
trj_protocols::md::MDBaseprivate
trj_score_only() const protocols::md::MDBaseinline
trj_score_only_protocols::md::MDBaseprivate
trj_scratch() const protocols::md::MDBaseinline
trj_scratch_protocols::md::MDBaseprivate
type(const std::string &type_in)protocols::moves::Moverinline
type() const protocols::moves::Moverinline
uniform_coord_constrained() const protocols::md::MDBaseinline
uniform_coord_constrained_protocols::md::MDBaseprivate
vel() const protocols::md::MDBaseinline
vel(core::Size idof)protocols::md::MDBaseinline
vel_protocols::md::MDBaseprivate
write_dynamic_rsr() const protocols::md::MDBaseinline
write_dynamic_rsr_protocols::md::MDBaseprivate
xyz() const protocols::md::MDBaseinline
xyz(core::Size idof)protocols::md::MDBaseinline
xyz_protocols::md::MDBaseprivate
~MDBase() overrideprotocols::md::MDBase
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