| add_evaluation(evaluation::PoseEvaluatorOP) | protocols::jd2::JobOutputter | |
| add_info(std::string const &, Strings const &, bool append=true) | protocols::dna::PDBOutput | |
| affixed_numbered_name(JobCOP job) | protocols::jd2::JobOutputter | protected |
| call_output_observers(core::pose::Pose const &pose, JobOP job) const | protocols::jd2::JobOutputter | |
| chi_diff_threshold_ | protocols::dna::PDBOutput | private |
| clear_evaluators() | protocols::jd2::JobOutputter | |
| designed_residue(core::Size, bool value=true) | protocols::dna::PDBOutput | |
| designed_residues_ | protocols::dna::PDBOutput | private |
| dump_pose(JobCOP job, core::pose::Pose const &pose, utility::io::ozstream &out, std::string const &filename="") override | protocols::jd2::PDBJobOutputter | protectedvirtual |
| enabled(bool value) const | protocols::dna::PDBOutput | inline |
| enabled() const | protocols::dna::PDBOutput | inline |
| enabled_ | protocols::dna::PDBOutput | mutableprivate |
| evaluate(core::pose::Pose &pose, std::string tag, core::io::silent::SilentStruct &pss) const | protocols::jd2::JobOutputter | |
| evaluators() const | protocols::jd2::JobOutputter | |
| extended_name(JobCOP job, std::string const &suffix="") | protocols::jd2::wwPDBJobOutputter | protectedvirtual |
| extract_data_from_Job(JobCOP job) | protocols::jd2::wwPDBJobOutputter | protectedvirtual |
| file(JobCOP job, std::string const &data) override | protocols::jd2::FileJobOutputter | virtual |
| FileJobOutputter() | protocols::jd2::FileJobOutputter | |
| filename(JobCOP) const | protocols::jd2::JobOutputter | inlinevirtual |
| final_pose(JobOP, Pose const &, std::string const &) override | protocols::dna::PDBOutput | virtual |
| flush() | protocols::jd2::JobOutputter | virtual |
| get_extension() | protocols::jd2::wwPDBJobOutputter | protected |
| get_path() | protocols::jd2::wwPDBJobOutputter | protected |
| get_residue_indices_to_output() | protocols::dna::PDBOutput | private |
| info_map_ | protocols::dna::PDBOutput | private |
| job_has_completed(JobCOP job) override | protocols::jd2::wwPDBJobOutputter | virtual |
| JobCOP typedef | protocols::dna::PDBOutput | |
| JobOP typedef | protocols::dna::PDBOutput | |
| JobOutputter() | protocols::jd2::JobOutputter | |
| mainchain_torsion_diff_threshold_ | protocols::dna::PDBOutput | private |
| note_designed_residues(PackerTaskCOP) | protocols::dna::PDBOutput | |
| operator()(Pose const &, std::string const &) | protocols::dna::PDBOutput | |
| other_pose(JobOP job, core::pose::Pose const &pose, std::string const &tag, int copy_count=-1, bool score_only=false) override | protocols::jd2::wwPDBJobOutputter | virtual |
| output_buried_unsatisfied_hbonds(ozstream &) | protocols::dna::PDBOutput | private |
| output_design_tags(ozstream &) const | protocols::dna::PDBOutput | private |
| output_hbond_info(ozstream &) | protocols::dna::PDBOutput | private |
| output_info(ozstream &) | protocols::dna::PDBOutput | private |
| output_name(JobCOP job) override | protocols::jd2::wwPDBJobOutputter | virtual |
| output_pdb(ozstream &) | protocols::dna::PDBOutput | private |
| output_score_info(ozstream &) | protocols::dna::PDBOutput | private |
| ozstream typedef | protocols::dna::PDBOutput | |
| PackerTaskCOP typedef | protocols::dna::PDBOutput | |
| parent typedef | protocols::jd2::PDBJobOutputter | |
| PDBJobOutputter() | protocols::jd2::PDBJobOutputter | |
| PDBOutput() | protocols::dna::PDBOutput | |
| Pose typedef | protocols::dna::PDBOutput | |
| pose_copy_ | protocols::dna::PDBOutput | private |
| PoseCOP typedef | protocols::dna::PDBOutput | |
| PoseOP typedef | protocols::dna::PDBOutput | |
| reference_pose(Pose const &) | protocols::dna::PDBOutput | virtual |
| reference_pose() const | protocols::dna::PDBOutput | |
| reference_pose_ | protocols::dna::PDBOutput | private |
| remove_info(std::string const &) | protocols::dna::PDBOutput | |
| res_indices_to_output_ | protocols::dna::PDBOutput | private |
| Residue typedef | protocols::dna::PDBOutput | |
| residues_are_different(Residue const &, Residue const &) const | protocols::dna::PDBOutput | |
| score_function(ScoreFunction const &sf) | protocols::dna::PDBOutput | |
| score_function() const | protocols::dna::PDBOutput | |
| score_function_ | protocols::dna::PDBOutput | private |
| scorefile(JobCOP job, core::pose::Pose const &pose, std::string prefix_tag="", std::string suffix_tag="", std::string scorefile="") | protocols::jd2::FileJobOutputter | protectedvirtual |
| scorefile_name() | protocols::jd2::FileJobOutputter | inline |
| ScoreFunction typedef | protocols::dna::PDBOutput | |
| ScoreFunctionCOP typedef | protocols::dna::PDBOutput | |
| ScoreFunctionOP typedef | protocols::dna::PDBOutput | |
| set_defaults() | protocols::jd2::FileJobOutputter | |
| set_evaluators(evaluation::PoseEvaluators const &) | protocols::jd2::JobOutputter | |
| set_extension(std::string const &extension) | protocols::jd2::wwPDBJobOutputter | protected |
| set_path(std::string const &path) | protocols::jd2::wwPDBJobOutputter | protected |
| starting_pose(Pose const &) override | protocols::dna::PDBOutput | virtual |
| Strings typedef | protocols::dna::PDBOutput | |
| StringsMap typedef | protocols::dna::PDBOutput | |
| write_scorefile() const | protocols::jd2::FileJobOutputter | inline |
| wwPDBJobOutputter() | protocols::jd2::wwPDBJobOutputter | |
| ~FileJobOutputter() override | protocols::jd2::FileJobOutputter | |
| ~JobOutputter() override | protocols::jd2::JobOutputter | |
| ~PDBJobOutputter() override | protocols::jd2::PDBJobOutputter | |
| ~PDBOutput() override | protocols::dna::PDBOutput | |
| ~wwPDBJobOutputter() override | protocols::jd2::wwPDBJobOutputter | |
1.8.7