| _read_file(std::string const &filename, bool throw_exception_on_bad_structs=false) | core::io::silent::SilentFileData | |
| _read_file(std::string const &filename, utility::vector1< std::string > const &tags, bool throw_exception_on_bad_structs=false) | core::io::silent::SilentFileData | |
| _write_silent_struct(SilentStruct &s, std::ostream &out, bool bWriteScoreOnly=false) const | core::io::silent::SilentFileData | |
| add_as_other_struct_if_relevant(SilentStructOP const &new_struct) | core::io::silent::SilentFileData | |
| add_structure(SilentStructOP const &new_struct) | core::io::silent::SilentFileData | |
| add_structure(SilentStruct const &new_struct) | core::io::silent::SilentFileData | |
| add_structure_replace_tag_if_necessary(SilentStructOP &new_struct) | core::io::silent::SilentFileData | |
| begin() | core::io::silent::SilentFileData | inline |
| begin() const | core::io::silent::SilentFileData | inline |
| check_if_rna_from_sequence_line(std::string const &sequence_line) | core::io::silent::SilentFileData | private |
| clear() | core::io::silent::SilentFileData | inline |
| clear_shared_silent_data() | core::io::silent::SilentFileData | inline |
| clear_structure_map() | core::io::silent::SilentFileData | inline |
| comment_line(std::string const &line) | core::io::silent::SilentFileData | inline |
| comment_lines() | core::io::silent::SilentFileData | inline |
| comment_lines_ | core::io::silent::SilentFileData | private |
| create_SilentStructOP() | core::io::silent::SilentFileData | |
| end() | core::io::silent::SilentFileData | inline |
| end() const | core::io::silent::SilentFileData | inline |
| filename() const | core::io::silent::SilentFileData | inline |
| filename_ | core::io::silent::SilentFileData | private |
| full_model_parameters_ | core::io::silent::SilentFileData | private |
| get_iterator_for_tag(const std::string &tag) | core::io::silent::SilentFileData | inline |
| get_iterator_for_tag(const std::string &tag) const | core::io::silent::SilentFileData | inline |
| get_resnum(std::string const &filename) | core::io::silent::SilentFileData | |
| get_sequence(std::string const &filename) | core::io::silent::SilentFileData | |
| get_shared_silent_data(SharedSilentDataType ssdt) const | core::io::silent::SilentFileData | |
| get_structure(const std::string &tag) const | core::io::silent::SilentFileData | inline |
| has_shared_silent_data(SharedSilentDataType ssdt) const | core::io::silent::SilentFileData | |
| has_tag(std::string const &tag) const | core::io::silent::SilentFileData | inline |
| is_score_type_line(std::string const &line) const | core::io::silent::SilentFileData | private |
| line_starts_with_other(std::string const &line) const | core::io::silent::SilentFileData | private |
| line_starts_with_other_header_string(std::string const &line) const | core::io::silent::SilentFileData | private |
| line_starts_with_remark(std::string const &line) const | core::io::silent::SilentFileData | private |
| line_starts_with_score(std::string const &line) const | core::io::silent::SilentFileData | private |
| line_starts_with_sequence(std::string const &line) const | core::io::silent::SilentFileData | private |
| lines_from_header_line_collection(std::map< SilentFileHeaderLine, std::string > const &header_lines, utility::vector1< std::string > &all_lines) const | core::io::silent::SilentFileData | private |
| matched_tags(std::string const &expression, std::string const &mode, utility::vector1< std::string > &tags_in_file) const | core::io::silent::SilentFileData | |
| nres() const | core::io::silent::SilentFileData | |
| operator[](std::string tag) | core::io::silent::SilentFileData | |
| options_ | core::io::silent::SilentFileData | private |
| order_by_energy() | core::io::silent::SilentFileData | |
| push_back(SilentStructOP const &new_struct) | core::io::silent::SilentFileData | inline |
| read_file(std::string const &filename) | core::io::silent::SilentFileData | |
| read_file(std::string const &filename, utility::vector1< std::string > const &tags) | core::io::silent::SilentFileData | |
| read_full_model_parameters_from_remark(std::string const &line, bool const header=false) | core::io::silent::SilentFileData | private |
| read_silent_struct_type_from_remark(std::string const &line, bool const header=false) | core::io::silent::SilentFileData | private |
| read_stream(std::istream &data, utility::vector1< std::string > const &tags, bool throw_exception_on_bad_structs, std::string filename="read_from_stream") | core::io::silent::SilentFileData | |
| read_tags_fast(std::string const &filename) const | core::io::silent::SilentFileData | |
| read_tags_fast(std::string const &filename, utility::vector1< std::string > &) const | core::io::silent::SilentFileData | |
| record_source_ | core::io::silent::SilentFileData | private |
| renumber_all_decoys() | core::io::silent::SilentFileData | |
| reverse_score_filter(Real const score_fraction) | core::io::silent::SilentFileData | |
| score_filter(Real const score_fraction) | core::io::silent::SilentFileData | |
| set_filename(std::string filename) | core::io::silent::SilentFileData | inline |
| set_record_source(bool const &new_mode) | core::io::silent::SilentFileData | inline |
| set_shared_silent_data(SharedSilentDataType ssdt, SharedSilentDataOP ssd_op) const | core::io::silent::SilentFileData | |
| set_verbose(bool const setting) | core::io::silent::SilentFileData | inline |
| shared_silent_data_ | core::io::silent::SilentFileData | mutableprivate |
| silent_struct_type_ | core::io::silent::SilentFileData | private |
| SilentFileData(SilentFileOptions const &options) | core::io::silent::SilentFileData | |
| SilentFileData(std::string const &filename, SilentFileOptions const &options) | core::io::silent::SilentFileData | |
| SilentFileData(std::string const &filename, bool const store_argv_in_file, bool const strict_column_mode, std::string const &silent_struct_type, SilentFileOptions const &options) | core::io::silent::SilentFileData | |
| size() const | core::io::silent::SilentFileData | inline |
| store_argv_in_file() const | core::io::silent::SilentFileData | inline |
| store_argv_in_file(bool new_setting) | core::io::silent::SilentFileData | inline |
| store_argv_in_file_ | core::io::silent::SilentFileData | private |
| strict_column_mode() const | core::io::silent::SilentFileData | inline |
| strict_column_mode(bool new_mode) | core::io::silent::SilentFileData | inline |
| strict_column_mode_ | core::io::silent::SilentFileData | private |
| structure_list() | core::io::silent::SilentFileData | inline |
| structure_list_ | core::io::silent::SilentFileData | private |
| structure_map_ | core::io::silent::SilentFileData | private |
| tags() const | core::io::silent::SilentFileData | |
| verbose_ | core::io::silent::SilentFileData | private |
| write_all(std::string const &filename, bool bWriteScoreOnly=false) const | core::io::silent::SilentFileData | |
| write_comment(std::ostream &out, std::string const &line) const | core::io::silent::SilentFileData | |
| write_silent_struct(SilentStruct &s, std::string const &filename, bool bWriteScoreOnly=false) const | core::io::silent::SilentFileData | |
| write_silent_struct(SilentStruct &s, std::ostream &out, bool bWriteScoreOnly=false) const | core::io::silent::SilentFileData | |
| ~SilentFileData() override | core::io::silent::SilentFileData | |
1.8.7