| AbstractArchiveBase(BaseArchiveManagerAP ptr) | protocols::jd2::archive::AbstractArchiveBase | inline |
| AbstractArchiveBase() | protocols::jd2::archive::AbstractArchiveBase | inline |
| acceptance_history_ | protocols::jd2::archive::ArchiveBase | private |
| AcceptHistoryQueue typedef | protocols::jd2::archive::ArchiveBase | private |
| accepts_since_last_batch() | protocols::jd2::archive::ArchiveBase | inline |
| accepts_since_last_batch() const | protocols::jd2::archive::ArchiveBase | inline |
| accepts_since_last_batch_ | protocols::jd2::archive::ArchiveBase | private |
| add_structure(core::io::silent::SilentStructOP new_decoy, core::io::silent::SilentStructOP alternative_decoy, Batch const &) | protocols::jd2::archive::ArchiveBase | virtual |
| add_structure_at_position(SilentStructs::iterator iss, core::io::silent::SilentStructOP new_decoy, core::io::silent::SilentStructOP alternative_decoy) | protocols::jd2::archive::ArchiveBase | protectedvirtual |
| ArchiveBase(ArchiveManagerAP ptr=nullptr) | protocols::jd2::archive::ArchiveBase | |
| const_decoy_iterator typedef | protocols::jd2::archive::ArchiveBase | protected |
| count_removed_structures(core::Size n_removed) | protocols::jd2::archive::ArchiveBase | protected |
| count_structure(Batch const &batch, bool accepted) | protocols::jd2::archive::ArchiveBase | protectedvirtual |
| current_acceptance_ratio() const | protocols::jd2::archive::ArchiveBase | inline |
| decoy_iterator typedef | protocols::jd2::archive::ArchiveBase | protected |
| decoys() const | protocols::jd2::archive::ArchiveBase | inline |
| decoys() | protocols::jd2::archive::ArchiveBase | inline |
| decoys_ | protocols::jd2::archive::ArchiveBase | private |
| erase_decoy(std::string const &tag) | protocols::jd2::archive::ArchiveBase | protectedvirtual |
| finished() const override | protocols::jd2::archive::ArchiveBase | inlinevirtual |
| floating_acceptance_ratio_ | protocols::jd2::archive::ArchiveBase | private |
| generate_batch() override=0 | protocols::jd2::archive::ArchiveBase | pure virtual |
| protocols::jd2::archive::AbstractArchiveBase::generate_batch(jd2::archive::Batch &, core::Size) | protocols::jd2::archive::AbstractArchiveBase | inlinevirtual |
| idle() override | protocols::jd2::archive::ArchiveBase | inlinevirtual |
| init_from_decoy_set(core::io::silent::SilentFileData const &sfd) override | protocols::jd2::archive::ArchiveBase | virtual |
| initialize() override | protocols::jd2::archive::ArchiveBase | inlinevirtual |
| load_decoys(std::string const &filename, SilentStructs &decoys) | protocols::jd2::archive::ArchiveBase | |
| manager() | protocols::jd2::archive::AbstractArchiveBase | inline |
| manager_ptr() | protocols::jd2::archive::AbstractArchiveBase | inlineprotected |
| max_nstruct() | protocols::jd2::archive::ArchiveBase | inlineprotected |
| max_nstruct_ | protocols::jd2::archive::ArchiveBase | private |
| min_structures_for_acceptance_statistics_ | protocols::jd2::archive::ArchiveBase | private |
| name() const | protocols::jd2::archive::AbstractArchiveBase | inline |
| nstruct() const | protocols::jd2::archive::ArchiveBase | inline |
| nstruct_ | protocols::jd2::archive::ArchiveBase | private |
| options_registered_ | protocols::jd2::archive::ArchiveBase | privatestatic |
| proposed_since_last_batch() const | protocols::jd2::archive::ArchiveBase | inline |
| proposed_since_last_batch_ | protocols::jd2::archive::ArchiveBase | private |
| read_structures(core::io::silent::SilentFileData &, core::io::silent::SilentFileData &alternative_decoys, Batch const &batch) override | protocols::jd2::archive::ArchiveBase | virtual |
| register_options() | protocols::jd2::archive::ArchiveBase | static |
| reset_accept_counter() | protocols::jd2::archive::ArchiveBase | inline |
| restore_from_file() override | protocols::jd2::archive::ArchiveBase | virtual |
| restore_status(std::istream &) | protocols::jd2::archive::ArchiveBase | virtual |
| save_decoys(std::string const &dirname, std::string const &name, SilentStructs const &decoys) | protocols::jd2::archive::ArchiveBase | |
| save_status(std::ostream &) const override | protocols::jd2::archive::ArchiveBase | virtual |
| save_to_file(std::string suffix="") override | protocols::jd2::archive::ArchiveBase | virtual |
| set_manager(BaseArchiveManagerAP manager) | protocols::jd2::archive::AbstractArchiveBase | inlinevirtual |
| set_max_nstruct(core::Size setting) | protocols::jd2::archive::ArchiveBase | inlineprotected |
| set_name(std::string const &set) | protocols::jd2::archive::AbstractArchiveBase | inline |
| set_nstruct(core::Size set) | protocols::jd2::archive::ArchiveBase | inline |
| SilentStructs typedef | protocols::jd2::archive::ArchiveBase | protected |
| SOURCE_FILE | protocols::jd2::archive::ArchiveBase | protectedstatic |
| statistics_valid() | protocols::jd2::archive::ArchiveBase | inline |
| still_interested(jd2::archive::Batch const &) const | protocols::jd2::archive::AbstractArchiveBase | inlinevirtual |
| TAG_IN_FILE | protocols::jd2::archive::ArchiveBase | protectedstatic |
| total_accepts() | protocols::jd2::archive::ArchiveBase | inline |
| total_accepts_ | protocols::jd2::archive::ArchiveBase | private |
| total_proposed() | protocols::jd2::archive::ArchiveBase | inline |
| total_proposed_ | protocols::jd2::archive::ArchiveBase | private |
| ~AbstractArchiveBase() override | protocols::jd2::archive::AbstractArchiveBase | |
| ~ArchiveBase() override | protocols::jd2::archive::ArchiveBase | |
1.8.7