Rosetta 3.4
protocols::abinitio::IterativeFullatom Member List
This is the complete list of members for protocols::abinitio::IterativeFullatom, including all inherited members.
AbstractArchiveBase(ArchiveManagerAP ptr)protocols::jd2::archive::AbstractArchiveBase [inline]
AbstractArchiveBase()protocols::jd2::archive::AbstractArchiveBase [inline]
accepts_since_last_batch()protocols::jd2::archive::ArchiveBase [inline]
accepts_since_last_batch() const protocols::jd2::archive::ArchiveBase [inline]
add_evaluated_structure(core::io::silent::SilentStructOP evaluated_decoy)protocols::jd2::archive::EvaluatedArchive [protected, virtual]
add_evaluation(evaluation::PoseEvaluatorOP, core::Real weight=0.0)protocols::jd2::archive::EvaluatedArchive [protected]
add_fullatom_flags(jd2::archive::Batch &batch)protocols::abinitio::IterativeBase [protected]
add_structure(core::io::silent::SilentStructOP)protocols::abinitio::IterativeBase [virtual]
add_structure_at_position(SilentStructs::iterator iss, core::io::silent::SilentStructOP new_decoy)protocols::jd2::archive::ArchiveBase [protected]
ArchiveBase(ArchiveManagerAP ptr=NULL)protocols::jd2::archive::ArchiveBase
CEN2FULLATOM enum valueprotocols::abinitio::IterativeBase
cen_score() const protocols::abinitio::IterativeBase [inline, protected]
cen_score_patch() const protocols::abinitio::IterativeBase [inline, protected]
chemshift_column() const protocols::abinitio::IterativeBase [inline, protected]
cluster()protocols::abinitio::IterativeBase [protected]
compute_beta_topology()protocols::abinitio::IterativeBase [protected]
compute_cores()protocols::abinitio::IterativeBase [protected]
const_decoy_iterator typedefprotocols::jd2::archive::ArchiveBase [protected]
core(core::Size i)protocols::abinitio::IterativeBase [inline, protected]
count_removed_structures(core::Size n_removed)protocols::jd2::archive::ArchiveBase [protected]
count_structure(Batch const &batch, bool accepted)protocols::jd2::archive::ArchiveBase [protected, virtual]
current_acceptance_ratio() const protocols::jd2::archive::ArchiveBase [inline]
decoy_iterator typedefprotocols::jd2::archive::ArchiveBase [protected]
decoys()protocols::jd2::archive::ArchiveBase [inline, protected]
decoys() const protocols::jd2::archive::ArchiveBase [inline, protected]
ENUMERATION enum valueprotocols::abinitio::IterativeBase
evaluate_local() const protocols::jd2::archive::EvaluatedArchive [inline, protected]
evaluate_silent_struct(core::io::silent::SilentStructOP from_batch) const protocols::jd2::archive::EvaluatedArchive [protected]
EvaluatedArchive(ArchiveManagerAP ptr)protocols::jd2::archive::EvaluatedArchive
EvaluatedArchive()protocols::jd2::archive::EvaluatedArchive
fa_score() const protocols::abinitio::IterativeBase [inline, protected]
fa_score_patch() const protocols::abinitio::IterativeBase [inline, protected]
FINISHED enum valueprotocols::abinitio::IterativeBase
finished() const protocols::abinitio::IterativeBase [inline, virtual]
gen_cen2fullatom(jd2::archive::Batch &batch)protocols::abinitio::IterativeBase [protected]
gen_cen2fullatom_non_pool_decoys(jd2::archive::Batch &batch)protocols::abinitio::IterativeBase [protected]
gen_enumerate_pairings(jd2::archive::Batch &batch)protocols::abinitio::IterativeBase [protected]
gen_evaluation_output(jd2::archive::Batch &batch, bool fullatom=false)protocols::abinitio::IterativeBase [virtual]
gen_noe_assignments(jd2::archive::Batch &batch)protocols::abinitio::IterativeBase [protected]
gen_resample_core(jd2::archive::Batch &batch, bool flex)protocols::abinitio::IterativeFullatom [protected]
gen_resample_fragments(jd2::archive::Batch &batch)protocols::abinitio::IterativeBase [protected]
gen_resample_stage2(jd2::archive::Batch &batch)protocols::abinitio::IterativeBase [protected]
gen_resample_topologies(jd2::archive::Batch &batch)protocols::abinitio::IterativeBase [protected]
gen_start_structures(jd2::archive::Batch &batch)protocols::abinitio::IterativeBase [protected]
generate_batch()protocols::abinitio::IterativeFullatom [virtual]
get_weight(std::string const &column)protocols::jd2::archive::EvaluatedArchive [protected]
guess_pairings_from_secondary_structure(core::fragment::FragSet const &frags, std::string const &out_pairings_file, std::string const &out_frag_ss_file) const protocols::abinitio::IterativeBase [protected]
has_evaluator(std::string const &column)protocols::jd2::archive::EvaluatedArchive [protected]
idle()protocols::abinitio::IterativeBase [virtual]
init_from_decoy_set(core::io::silent::SilentFileData const &sfd)protocols::abinitio::IterativeBase [virtual]
IterationStage enum nameprotocols::abinitio::IterativeBase
IterativeBase(std::string name)protocols::abinitio::IterativeBase
IterativeFullatom()protocols::abinitio::IterativeFullatom
LAST_CENTROID_START enum valueprotocols::abinitio::IterativeBase
manager()protocols::jd2::archive::AbstractArchiveBase [inline]
manager_ptr()protocols::jd2::archive::AbstractArchiveBase [inline, protected]
name() const protocols::jd2::archive::AbstractArchiveBase [inline]
nstruct() const protocols::jd2::archive::ArchiveBase [inline]
proposed_since_last_batch() const protocols::jd2::archive::ArchiveBase [inline]
PURE_TOPO_RESAMPLING enum valueprotocols::abinitio::IterativeBase
read_structures(core::io::silent::SilentFileData &returned_decoys, jd2::archive::Batch const &batch)protocols::abinitio::IterativeBase [virtual]
ready_for_batch() const protocols::abinitio::IterativeFullatom [virtual]
reassign_noesy_data(jd2::archive::Batch &batch)protocols::abinitio::IterativeBase [protected]
register_options()protocols::abinitio::IterativeFullatom [static]
remove_evaluation(std::string const &column)protocols::jd2::archive::EvaluatedArchive [protected]
rescore()protocols::jd2::archive::EvaluatedArchive [protected]
reset_accept_counter()protocols::jd2::archive::ArchiveBase [inline]
restore_from_file()protocols::jd2::archive::EvaluatedArchive [virtual]
restore_status(std::istream &)protocols::abinitio::IterativeBase [virtual]
RIGID_CORE_RESAMPLING enum valueprotocols::abinitio::IterativeBase
save_status(std::ostream &) const protocols::abinitio::IterativeBase [virtual]
save_to_file(std::string suffix="")protocols::jd2::archive::ArchiveBase [virtual]
scored_core_protocols::abinitio::IterativeBase [protected]
scored_core_initialized_protocols::abinitio::IterativeBase [protected]
scorefxn() const protocols::jd2::archive::EvaluatedArchive [protected]
scorefxn_non_const()protocols::jd2::archive::EvaluatedArchive [protected]
select_score(core::io::silent::SilentStructOP evaluated_decoy)protocols::jd2::archive::EvaluatedArchive
set_evaluate_local(bool setting)protocols::jd2::archive::EvaluatedArchive [inline, protected]
set_finish_stage(IterationStage setting)protocols::abinitio::IterativeBase [inline]
set_manager(ArchiveManagerAP manager)protocols::jd2::archive::AbstractArchiveBase [inline, virtual]
set_name(std::string const &set)protocols::jd2::archive::AbstractArchiveBase [inline]
set_noesy_assign_float_cycle(core::Real setting)protocols::abinitio::IterativeBase [inline, protected]
set_nstruct(core::Size set)protocols::jd2::archive::ArchiveBase [inline]
set_scorefxn(core::scoring::ScoreFunctionOP scorefxn_)protocols::jd2::archive::EvaluatedArchive [protected]
set_stage(IterationStage setting)protocols::abinitio::IterativeBase [inline, protected]
set_weight(std::string const &column, core::Real weight)protocols::jd2::archive::EvaluatedArchive [protected]
setup_default_evaluators()protocols::abinitio::IterativeBase
SilentStructs typedefprotocols::jd2::archive::ArchiveBase [protected]
SOURCE_FILEprotocols::jd2::archive::ArchiveBase [protected, static]
stage() const protocols::abinitio::IterativeBase [inline, protected]
STAGE2_RESAMPLING enum valueprotocols::abinitio::IterativeBase
statistics_valid()protocols::jd2::archive::ArchiveBase [inline]
still_interested(jd2::archive::Batch const &batch) const protocols::abinitio::IterativeBase [virtual]
super_quick_relax_of_centroids_protocols::abinitio::IterativeBase [protected]
TAG_IN_FILEprotocols::jd2::archive::ArchiveBase [protected, static]
target_sequence() const protocols::abinitio::IterativeBase [inline, protected]
test_broker_settings(jd2::archive::Batch const &batch)protocols::abinitio::IterativeBase [protected]
TOPO_RESAMPLING enum valueprotocols::abinitio::IterativeBase
total_accepts()protocols::jd2::archive::ArchiveBase [inline]
total_proposed()protocols::jd2::archive::ArchiveBase [inline]
~ArchiveBase()protocols::jd2::archive::ArchiveBase
~EvaluatedArchive()protocols::jd2::archive::EvaluatedArchive
~IterativeBase()protocols::abinitio::IterativeBase
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