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protocols::forge::remodel::RemodelLoopMover Member List

This is the complete list of members for protocols::forge::remodel::RemodelLoopMover, including all inherited members.

abinitio_stage(Pose &pose, core::Size const fragmentSize, MoveMap const movemap, ScoreFunctionOP sfxOP, core::Size const max_outer_cycles, core::Size const max_inner_cycles, std::set< core::Size > const &disallowedPos, bool const recover_low, std::string stage_name, bool const smoothMoves, Real const fragScoreThreshold)protocols::forge::remodel::RemodelLoopMoverprotected
add_fragments(FragSetCOP fragset)protocols::forge::remodel::RemodelLoopMover
add_loop(Loop const loop)protocols::forge::remodel::RemodelLoopMoverinline
allowed_closure_attempts() const protocols::forge::remodel::RemodelLoopMoverinline
allowed_closure_attempts(core::Size const attempts)protocols::forge::remodel::RemodelLoopMoverinline
allowed_closure_attempts_protocols::forge::remodel::RemodelLoopMoverprivate
apply(Pose &pose) overrideprotocols::forge::remodel::RemodelLoopMovervirtual
boost_closure_cycles() const protocols::forge::remodel::RemodelLoopMoverinline
boost_closure_cycles(core::Size const cycles)protocols::forge::remodel::RemodelLoopMoverinline
boost_closure_cycles_protocols::forge::remodel::RemodelLoopMoverprivate
boost_closure_stage(Pose &pose, MonteCarlo &mc, Real const cbreak_increment)protocols::forge::remodel::RemodelLoopMoverprotected
check_closure_criteria(Pose &pose, bool const show_in_tracer=false)protocols::forge::remodel::RemodelLoopMoverprotected
ClassicFragmentMoverOP typedefprotocols::forge::remodel::RemodelLoopMover
clear_fragments()protocols::forge::remodel::RemodelLoopMover
clear_info()protocols::moves::Moverinlinevirtual
clone() const overrideprotocols::forge::remodel::RemodelLoopMovervirtual
count_moveable_residues(MoveMap const &movemap, core::Size const left, core::Size const right)protocols::forge::remodel::RemodelLoopMoverprotected
create()protocols::moves::Movervirtual
create_fragment_movers(MoveMap const &movemap, core::Size const largest_frag_size=0)protocols::forge::remodel::RemodelLoopMoverprotected
create_fragment_movers(MoveMap const &movemap, FragmentMoverOPs &frag_movers, core::Size const largest_frag_size=0)protocols::forge::remodel::RemodelLoopMoverprotected
create_fragment_movers_limit_size(MoveMap const &movemap, core::Size const frag_size, std::set< core::Size > const &disallowedPos, bool const smoothMoves, ScoreFunctionOP const scorefxnOP, Real const fragScoreThreshold=999.0)protocols::forge::remodel::RemodelLoopMoverprotected
create_per_loop_fragment_movers(loops::LoopsOP const loops, core::Size const largest_frag_size=0)protocols::forge::remodel::RemodelLoopMoverprotected
DataMap typedefprotocols::forge::remodel::RemodelLoopMover
determine_loops_to_model(Pose &pose)protocols::forge::remodel::RemodelLoopMoverprotected
enforce_false_movemap(MoveMap &movemap)protocols::forge::remodel::RemodelLoopMoverprotected
fa_relax_stage(Pose &pose)protocols::forge::remodel::RemodelLoopMoverprotected
false_movemap() const protocols::forge::remodel::RemodelLoopMoverinline
false_movemap(MoveMap const &movemap)protocols::forge::remodel::RemodelLoopMoverinline
false_movemap_protocols::forge::remodel::RemodelLoopMoverprivate
FragmentMoverOP typedefprotocols::forge::remodel::RemodelLoopMover
FragmentMoverOPs typedefprotocols::forge::remodel::RemodelLoopMover
FragSetCOP typedefprotocols::forge::remodel::RemodelLoopMover
FragSetOP typedefprotocols::forge::remodel::RemodelLoopMover
FragSetOPs typedefprotocols::forge::remodel::RemodelLoopMover
fragsets_protocols::forge::remodel::RemodelLoopMoverprivate
fresh_instance() const overrideprotocols::forge::remodel::RemodelLoopMovervirtual
generate_ncs_csts(Pose &pose)protocols::forge::remodel::RemodelLoopMoverprotected
generate_residues_to_sample(bool chooseSubsetResidues, Pose &pose, core::Size fragmentSize)protocols::forge::remodel::RemodelLoopMoverprivate
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 overrideprotocols::forge::remodel::RemodelLoopMovervirtual
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
independent_cycles() const protocols::forge::remodel::RemodelLoopMoverinline
independent_cycles(core::Size const cycles)protocols::forge::remodel::RemodelLoopMoverinline
independent_cycles_protocols::forge::remodel::RemodelLoopMoverprivate
independent_stage(Pose &pose, MonteCarlo &mc, Real const cbreak_increment)protocols::forge::remodel::RemodelLoopMoverprotected
info()protocols::moves::Moverinlinevirtual
info() const protocols::moves::Moverinlinevirtual
insert_random_smallestmer_per_loop(Pose &pose, bool const only_broken_loops=true)protocols::forge::remodel::RemodelLoopMoverprotected
keep_input_foldtree_protocols::forge::remodel::RemodelLoopMoverprivate
last_proposal_density_ratio()protocols::moves::Moverinlinevirtual
Loop typedefprotocols::forge::remodel::RemodelLoopMover
loophash_cycles() const protocols::forge::remodel::RemodelLoopMoverinline
loophash_cycles(core::Size const cycles)protocols::forge::remodel::RemodelLoopMoverinline
loophash_cycles_protocols::forge::remodel::RemodelLoopMoverprivate
loophash_stage(Pose &pose, MonteCarlo &mc, Real const cbreak_increment)protocols::forge::remodel::RemodelLoopMoverprotected
loops() const protocols::forge::remodel::RemodelLoopMoverinline
loops(loops::LoopsOP const loops)protocols::forge::remodel::RemodelLoopMoverinline
Loops typedefprotocols::forge::remodel::RemodelLoopMover
loops_protocols::forge::remodel::RemodelLoopMoverprivate
mark_loop_moveable(Loop const &loop, MoveMap &movemap, bool const allow_omega)protocols::forge::remodel::RemodelLoopMoverprotected
mark_loops_moveable(loops::LoopsOP const loops, MoveMap &movemap, bool const allow_omega)protocols::forge::remodel::RemodelLoopMoverprotected
max_linear_chainbreak() const protocols::forge::remodel::RemodelLoopMoverinline
max_linear_chainbreak(Real const val)protocols::forge::remodel::RemodelLoopMoverinline
max_linear_chainbreak_protocols::forge::remodel::RemodelLoopMoverprivate
MonteCarlo typedefprotocols::forge::remodel::RemodelLoopMover
MoveMap typedefprotocols::forge::remodel::RemodelLoopMover
Mover()protocols::moves::Mover
Mover(std::string const &type_name)protocols::moves::Mover
MoverOP typedefprotocols::forge::remodel::RemodelLoopMover
name()protocols::moves::Moverinlinestatic
operator=(RemodelLoopMover const &rval)protocols::forge::remodel::RemodelLoopMoverprivate
parse_my_tag(TagCOP tag, basic::datacache::DataMap &data)protocols::moves::Movervirtual
Pose typedefprotocols::forge::remodel::RemodelLoopMover
PoseCOP typedefprotocols::moves::Mover
PoseOP typedefprotocols::forge::remodel::RemodelLoopMover
provide_citation_info(basic::citation_manager::CitationCollectionList &) const protocols::moves::Movervirtual
randomize_loops() const protocols::forge::remodel::RemodelLoopMoverinline
randomize_loops(bool const flag)protocols::forge::remodel::RemodelLoopMoverinline
randomize_loops_protocols::forge::remodel::RemodelLoopMoverprivate
randomize_stage(Pose &pose)protocols::forge::remodel::RemodelLoopMover
Real typedefprotocols::forge::remodel::RemodelLoopMover
register_options()protocols::forge::remodel::RemodelLoopMoverstatic
reinitialize_for_each_job() const protocols::moves::Movervirtual
reinitialize_for_new_input() const protocols::moves::Movervirtual
remodel_data_protocols::forge::remodel::RemodelLoopMoverprivate
remodelData(protocols::forge::remodel::RemodelData const remodel_data)protocols::forge::remodel::RemodelLoopMover
RemodelLoopMover()protocols::forge::remodel::RemodelLoopMover
RemodelLoopMover(loops::LoopsOP const loops)protocols::forge::remodel::RemodelLoopMover
RemodelLoopMover(RemodelLoopMover const &rval)protocols::forge::remodel::RemodelLoopMover
repeat_generation_with_additional_residue(Pose &pose, Pose &repeat_pose)protocols::forge::remodel::RemodelLoopMover
repeat_length_protocols::forge::remodel::RemodelLoopMoverprivate
repeat_pose_protocols::forge::remodel::RemodelLoopMoverprivate
repeat_propagation(Pose &pose, Pose &repeat_pose, core::Size repeat_number)protocols::forge::remodel::RemodelLoopMover
repeat_sync(core::pose::Pose &repeat_pose, core::Size repeat_number)protocols::forge::remodel::RemodelLoopMover
repeat_tail_length_protocols::forge::remodel::RemodelLoopMoverprivate
reset_status()protocols::moves::Mover
RGF_protocols::forge::remodel::RemodelLoopMoverprivate
scorefunction() const protocols::forge::remodel::RemodelLoopMover
scorefunction(ScoreFunction const &sfx)protocols::forge::remodel::RemodelLoopMover
ScoreFunction typedefprotocols::forge::remodel::RemodelLoopMover
ScoreFunctionOP typedefprotocols::forge::remodel::RemodelLoopMover
seal_foldtree_protocols::forge::remodel::RemodelLoopMoverprivate
set_current_job(protocols::jobdist::BasicJobCOP job)protocols::moves::Mover
set_current_tag(std::string const &new_tag)protocols::moves::Moverinlinevirtual
set_ideal_helices(Pose &pose)protocols::forge::remodel::RemodelLoopMoverprivate
set_input_pose(PoseCOP pose)protocols::moves::Movervirtual
set_keep_input_foldtree(bool const setting)protocols::forge::remodel::RemodelLoopMoverinline
set_last_move_status(MoverStatus status)protocols::moves::Moverprotected
set_native_pose(PoseCOP pose)protocols::moves::Movervirtual
set_param_from_options()protocols::forge::remodel::RemodelLoopMover
set_repeat_tail_length(core::Size const length)protocols::forge::remodel::RemodelLoopMoverinline
set_seal_foldtree(bool const setting)protocols::forge::remodel::RemodelLoopMoverinline
set_segment_stage(Pose &pose, MonteCarlo &mc)protocols::forge::remodel::RemodelLoopMoverprotected
set_starting_pdb(Pose &pose)protocols::forge::remodel::RemodelLoopMoverprivate
set_starting_sequence(Pose &pose)protocols::forge::remodel::RemodelLoopMoverprivate
set_type(std::string const &setting)protocols::moves::Moverinline
set_user_provided_movers(utility::vector1< moves::MoverOP > const &movers)protocols::forge::remodel::RemodelLoopMover
sfx_protocols::forge::remodel::RemodelLoopMoverprivate
show(std::ostream &output=std::cout) const protocols::moves::Movervirtual
simultaneous_cycles() const protocols::forge::remodel::RemodelLoopMoverinline
simultaneous_cycles(core::Size const cycles)protocols::forge::remodel::RemodelLoopMoverinline
simultaneous_cycles_protocols::forge::remodel::RemodelLoopMoverprivate
simultaneous_stage(Pose &pose, MonteCarlo &mc, Real const cbreak_increment)protocols::forge::remodel::RemodelLoopMoverprotected
Size typedefprotocols::forge::remodel::RemodelLoopMover
small_move_stage(Pose &pose, MoveMap const movemap, ScoreFunctionOP sfxOP, core::Size const max_outer_cycles, core::Size const max_inner_cycles, bool const recover_low, Real const h_range, Real const e_range, Real const l_range)protocols::forge::remodel::RemodelLoopMoverprotected
String typedefprotocols::forge::remodel::RemodelLoopMover
Strings typedefprotocols::moves::Mover
Super typedefprotocols::forge::remodel::RemodelLoopMoverprivate
TagCOP typedefprotocols::forge::remodel::RemodelLoopMover
temperature() const protocols::forge::remodel::RemodelLoopMoverinline
temperature(Real const temp)protocols::forge::remodel::RemodelLoopMoverinline
temperature_protocols::forge::remodel::RemodelLoopMoverprivate
test_move(Pose &pose)protocols::moves::Moverinlinevirtual
total_standard_cycles() const protocols::forge::remodel::RemodelLoopMoverinline
type(const std::string &type_in)protocols::moves::Moverinline
type() const protocols::moves::Moverinline
unit_length_protocols::forge::remodel::RemodelLoopMoverprivate
user_provided_movers_protocols::forge::remodel::RemodelLoopMoverprivate
user_provided_movers_apply_cycle(core::Size const cycle)protocols::forge::remodel::RemodelLoopMoverinline
user_provided_movers_apply_cycle_protocols::forge::remodel::RemodelLoopMoverprivate
~RemodelLoopMover() overrideprotocols::forge::remodel::RemodelLoopMover
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