Rosetta 3.4
protocols::abinitio::Stage1Sampler Member List
This is the complete list of members for protocols::abinitio::Stage1Sampler, including all inherited members.
add_evaluation(evaluation::PoseEvaluatorOP ev)protocols::abinitio::Protocol
ALL_STAGES enum valueprotocols::abinitio::ClassicAbinitio
apply(core::pose::Pose &pose)protocols::abinitio::Stage1Sampler [virtual]
BaseClass typedefprotocols::abinitio::Protocol
bQuickTest() const protocols::abinitio::ClassicAbinitio [inline]
brute_move_large()protocols::abinitio::ClassicAbinitio
brute_move_small()protocols::abinitio::ClassicAbinitio
bSkipStage1_protocols::abinitio::ClassicAbinitio
bSkipStage2_protocols::abinitio::ClassicAbinitio
bSkipStage3_protocols::abinitio::ClassicAbinitio
bSkipStage4_protocols::abinitio::ClassicAbinitio
bSkipStage5_protocols::abinitio::ClassicAbinitio
centroid_scorefxn()protocols::abinitio::Protocol [inline]
ClassicAbinitio(simple_moves::FragmentMoverOP brute_move_small, simple_moves::FragmentMoverOP brute_move_large, simple_moves::FragmentMoverOP smooth_move_small, int)protocols::abinitio::ClassicAbinitio
ClassicAbinitio(core::fragment::FragSetCOP fragset_small, core::fragment::FragSetCOP fragset_large, core::kinematics::MoveMapCOP movemap)protocols::abinitio::ClassicAbinitio
ClassicAbinitio(ClassicAbinitio const &src)protocols::abinitio::ClassicAbinitio
clear_info()protocols::moves::Mover [inline, virtual]
clone() const protocols::abinitio::ClassicAbinitio [virtual]
current_scorefxn() const protocols::abinitio::ClassicAbinitio [protected]
current_scorefxn(core::scoring::ScoreFunction const &scorefxn)protocols::abinitio::ClassicAbinitio [protected]
do_stage1_cycles(core::pose::Pose &pose)protocols::abinitio::ClassicAbinitio [protected, virtual]
do_stage2_cycles(core::pose::Pose &pose)protocols::abinitio::ClassicAbinitio [protected, virtual]
do_stage3_cycles(core::pose::Pose &pose)protocols::abinitio::ClassicAbinitio [protected, virtual]
do_stage4_cycles(core::pose::Pose &pose)protocols::abinitio::ClassicAbinitio [protected, virtual]
do_stage5_cycles(core::pose::Pose &pose)protocols::abinitio::ClassicAbinitio [protected, virtual]
evaluate_pose(core::pose::Pose &pose, std::string tag, core::io::silent::SilentStruct &pss) const protocols::abinitio::Protocol
evaluator()protocols::abinitio::Protocol [inline]
Filters_map typedefprotocols::moves::Mover
fresh_instance() const protocols::moves::Mover [virtual]
fullatom_scorefxn()protocols::abinitio::Protocol [inline]
get_additional_output()protocols::moves::Mover [virtual]
get_checkpoints()protocols::abinitio::Protocol [inline, 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::abinitio::ClassicAbinitio [virtual]
get_native_pose() const protocols::moves::Mover
get_type() const protocols::moves::Mover [inline]
info()protocols::moves::Mover [inline, virtual]
info() const protocols::moves::Mover [inline, virtual]
init(core::pose::Pose const &pose)protocols::abinitio::ClassicAbinitio [virtual]
just_smooth_cycles() const protocols::abinitio::ClassicAbinitio [inline]
kinematics()protocols::abinitio::Protocol [inline]
last_proposal_density_ratio()protocols::moves::Mover [inline, virtual]
mc()protocols::abinitio::ClassicAbinitio [inline]
mc() const protocols::abinitio::ClassicAbinitio [inline]
mc_ptr()protocols::abinitio::ClassicAbinitio [protected]
movemap()protocols::abinitio::ClassicAbinitio
Mover()protocols::moves::Mover
Mover(std::string const &type_name)protocols::moves::Mover
Mover(Mover const &other)protocols::moves::Mover
protocols::abinitio::Protocol::operator=(Mover const &other)protocols::moves::Mover
output_debug_structure(core::pose::Pose &pose, std::string prefix)protocols::abinitio::ClassicAbinitio [protected, virtual]
parse_my_tag(TagPtr const tag, DataMap &data, Filters_map const &filters, Movers_map const &movers, Pose const &pose)protocols::moves::Mover [virtual]
Pose typedefprotocols::moves::Mover
PoseCOP typedefprotocols::moves::Mover
prepare_loop_in_stage3(core::pose::Pose &, Size, Size)protocols::abinitio::ClassicAbinitio [protected, virtual]
prepare_loop_in_stage4(core::pose::Pose &, Size, Size)protocols::abinitio::ClassicAbinitio [protected, virtual]
prepare_stage1(core::pose::Pose &pose)protocols::abinitio::ClassicAbinitio [protected, virtual]
prepare_stage2(core::pose::Pose &pose)protocols::abinitio::ClassicAbinitio [protected, virtual]
prepare_stage3(core::pose::Pose &pose)protocols::abinitio::ClassicAbinitio [protected, virtual]
prepare_stage4(core::pose::Pose &pose)protocols::abinitio::ClassicAbinitio [protected, virtual]
prepare_stage5(core::pose::Pose &pose)protocols::abinitio::ClassicAbinitio [protected, virtual]
Protocol()protocols::abinitio::Protocol
recover_low(core::pose::Pose &pose, StageID stage)protocols::abinitio::ClassicAbinitio [protected]
recover_low_stages_protocols::abinitio::ClassicAbinitio
register_options()protocols::abinitio::ClassicAbinitio [static]
reinitialize_for_each_job() const protocols::moves::Mover [virtual]
reinitialize_for_new_input() const protocols::moves::Mover [virtual]
replace_scorefxn(core::pose::Pose &pose, StageID stage, core::Real intra_stage_progress)protocols::abinitio::ClassicAbinitio [protected, virtual]
reset_status()protocols::moves::Mover
return_centroid() const protocols::abinitio::Protocol [inline, virtual]
return_centroid(bool setting)protocols::abinitio::Protocol [inline, virtual]
set_centroid_scorefxn(core::scoring::ScoreFunctionOP sfxn)protocols::abinitio::Protocol [inline]
set_current_job(protocols::jobdist::BasicJobCOP job)protocols::moves::Mover
set_current_tag(std::string const &new_tag)protocols::moves::Mover [inline]
set_current_weight(core::scoring::ScoreType type, core::Real setting)protocols::abinitio::ClassicAbinitio [protected]
set_cycles(core::Real increase_cycles=1.0)protocols::abinitio::ClassicAbinitio [virtual]
set_default_mc(core::pose::Pose const &pose, core::scoring::ScoreFunction const &scorefxn)protocols::abinitio::ClassicAbinitio [protected, virtual]
set_default_options()protocols::abinitio::ClassicAbinitio [protected, virtual]
set_default_scores()protocols::abinitio::ClassicAbinitio [protected, virtual]
set_defaults(core::pose::Pose const &pose)protocols::abinitio::ClassicAbinitio [protected, virtual]
set_evaluation(evaluation::MetaPoseEvaluatorOP ev)protocols::abinitio::Protocol
set_fullatom_scorefxn(core::scoring::ScoreFunctionOP sfxn)protocols::abinitio::Protocol [inline]
set_input_pose(PoseCOP pose)protocols::moves::Mover [virtual]
set_kinematics(abinitio::KinematicControlOP kc)protocols::abinitio::Protocol [inline]
set_last_move_status(MoverStatus status)protocols::moves::Mover [protected]
set_mc(moves::MonteCarloOP)protocols::abinitio::ClassicAbinitio
set_movemap(core::kinematics::MoveMapCOP mm)protocols::abinitio::ClassicAbinitio [virtual]
set_moves(simple_moves::FragmentMoverOP brute_move_small, simple_moves::FragmentMoverOP brute_move_large, simple_moves::FragmentMoverOP smooth_move_small)protocols::abinitio::ClassicAbinitio
set_native_pose(PoseCOP pose)protocols::moves::Mover [virtual]
set_score_weight(core::scoring::ScoreType, core::Real setting, StageID stage=ALL_STAGES)protocols::abinitio::ClassicAbinitio [virtual]
set_silentout_file_name(std::string str)protocols::abinitio::Protocol [inline]
set_skip_stage1(bool setting)protocols::abinitio::ClassicAbinitio [inline]
set_skip_stage2(bool setting)protocols::abinitio::ClassicAbinitio [inline]
set_stage4_cycles(Size stage4_cycles_new)protocols::abinitio::ClassicAbinitio [inline]
set_trials()protocols::abinitio::ClassicAbinitio [protected, virtual]
smooth_move_small()protocols::abinitio::ClassicAbinitio
stage1_cycles() const protocols::abinitio::ClassicAbinitio [inline]
stage1_cycles_protocols::abinitio::ClassicAbinitio [protected]
stage1_mover(core::pose::Pose &pose, moves::TrialMoverOP trials_in)protocols::abinitio::ClassicAbinitio [protected, virtual]
Stage1Sampler(core::fragment::FragSetCOP fragset_large, core::kinematics::MoveMapCOP movemap)protocols::abinitio::Stage1Sampler [inline]
Stage1Sampler(protocols::simple_moves::FragmentMoverOP brute_move_large)protocols::abinitio::Stage1Sampler [inline]
stage2_cycles() const protocols::abinitio::ClassicAbinitio [inline]
stage2_cycles_protocols::abinitio::ClassicAbinitio [protected]
stage2_mover(core::pose::Pose &pose, moves::TrialMoverOP trials_in)protocols::abinitio::ClassicAbinitio [protected, virtual]
stage3_cycles() const protocols::abinitio::ClassicAbinitio [inline]
stage3_cycles_protocols::abinitio::ClassicAbinitio [protected]
stage3_mover(core::pose::Pose &pose, int lct1, int lct2, moves::TrialMoverOP trials_in)protocols::abinitio::ClassicAbinitio [protected, virtual]
stage4_cycles() const protocols::abinitio::ClassicAbinitio [inline]
stage4_cycles_protocols::abinitio::ClassicAbinitio [protected]
stage4_mover(core::pose::Pose &pose, int kk, moves::TrialMoverOP trials_in)protocols::abinitio::ClassicAbinitio [protected, virtual]
stage5_cycles() const protocols::abinitio::ClassicAbinitio [inline]
stage5_cycles_protocols::abinitio::ClassicAbinitio [protected]
stage5_mover(core::pose::Pose &pose, moves::TrialMoverOP trials_in)protocols::abinitio::ClassicAbinitio [protected, virtual]
STAGE_1 enum valueprotocols::abinitio::ClassicAbinitio
STAGE_2 enum valueprotocols::abinitio::ClassicAbinitio
STAGE_3a enum valueprotocols::abinitio::ClassicAbinitio
STAGE_3b enum valueprotocols::abinitio::ClassicAbinitio
STAGE_4 enum valueprotocols::abinitio::ClassicAbinitio
STAGE_5 enum valueprotocols::abinitio::ClassicAbinitio
StageID enum nameprotocols::abinitio::ClassicAbinitio
start_from_centroid() const protocols::abinitio::Protocol [inline, virtual]
Strings typedefprotocols::moves::Mover
TagPtr typedefprotocols::moves::Mover
test_move(Pose &pose)protocols::moves::Mover [inline, virtual]
total_trials() const protocols::abinitio::ClassicAbinitio [inline]
trial_large()protocols::abinitio::ClassicAbinitio [protected]
trial_small()protocols::abinitio::ClassicAbinitio [protected]
trial_smooth()protocols::abinitio::ClassicAbinitio [protected]
type() const protocols::moves::Mover [inline]
type(const std::string &type_in)protocols::moves::Mover [inline]
update_moves()protocols::abinitio::ClassicAbinitio [protected, virtual]
~ClassicAbinitio()protocols::abinitio::ClassicAbinitio
~Mover()protocols::moves::Mover [virtual]
~Protocol()protocols::abinitio::Protocol [inline]
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