add_comment(std::string name, std::string value) | core::io::silent::SilentStruct | |
add_energy(std::string scorename, Real value, Real weight=1.0) | core::io::silent::SilentStruct | |
add_other_struct(SilentStructOP silent_struct) | core::io::silent::SilentStruct | |
add_parent_remark(std::string const name, std::string const value) | core::io::silent::SilentStruct | |
add_string_value(std::string scorename, std::string const &value) | core::io::silent::SilentStruct | |
add_submotif_info_from_line(std::istream &line_stream) | core::io::silent::SilentStruct | |
clear_comments() | core::io::silent::SilentStruct | |
clear_energies() | core::io::silent::SilentStruct | inlinevirtual |
clone() const | core::io::silent::ScoreFileSilentStruct | inlinevirtual |
comment_from_line(std::string const &line) | core::io::silent::SilentStruct | |
copy_scores(const SilentStruct &src_ss) | core::io::silent::SilentStruct | |
decoy_tag() const | core::io::silent::SilentStruct | inline |
decoy_tag(std::string const &tag) | core::io::silent::SilentStruct | inline |
detect_fullatom(core::Size pos, core::Size natoms, bool &fullatom, bool &well_defined) | core::io::silent::SilentStruct | protected |
energies() const | core::io::silent::SilentStruct | inline |
energies_from_pose(core::pose::Pose const &pose) | core::io::silent::SilentStruct | |
energies_into_pose(core::pose::Pose &pose) const | core::io::silent::SilentStruct | |
energy_names() const | core::io::silent::SilentStruct | |
erase_comment(std::string const &name) | core::io::silent::SilentStruct | |
extract_writeable_cacheable_data(core::pose::Pose const &pose) | core::io::silent::SilentStruct | protected |
figure_out_residue_numbers_from_line(std::istream &line_stream) | core::io::silent::SilentStruct | |
figure_out_segment_ids_from_line(std::istream &line_stream) | core::io::silent::SilentStruct | |
fill_other_struct_list(pose::Pose const &pose) | core::io::silent::SilentStruct | |
fill_pose(core::pose::Pose &pose, core::chemical::ResidueTypeSet const &residue_set) const | core::io::silent::ScoreFileSilentStruct | virtual |
core::io::silent::SilentStruct::fill_pose(core::pose::Pose &pose) const | core::io::silent::SilentStruct | virtual |
core::io::silent::SilentStruct::fill_pose(core::pose::Pose &pose, core::chemical::ResidueTypeSetCOP residue_set) const | core::io::silent::SilentStruct | |
fill_struct(core::pose::Pose const &pose, std::string tag) | core::io::silent::ScoreFileSilentStruct | virtual |
fill_struct_with_residue_numbers(pose::Pose const &pose) | core::io::silent::SilentStruct | |
fill_struct_with_submotif_info_list(pose::Pose const &pose) | core::io::silent::SilentStruct | |
finish_pose(core::pose::Pose &pose) const | core::io::silent::SilentStruct | |
force_bitflip() const | core::io::silent::SilentStruct | inlinevirtual |
full_model_info_into_pose(pose::Pose &pose) const | core::io::silent::SilentStruct | |
full_model_parameters() const | core::io::silent::SilentStruct | inline |
get_all_comments() const | core::io::silent::SilentStruct | |
get_CA_xyz() const | core::io::silent::ScoreFileSilentStruct | virtual |
get_comment(std::string const &name) const | core::io::silent::SilentStruct | |
get_debug_rmsd() | core::io::silent::ScoreFileSilentStruct | virtual |
get_energy(std::string const &scorename) const | core::io::silent::SilentStruct | |
get_parent_remark(std::string const &name) const | core::io::silent::SilentStruct | |
get_parent_remark_from_line(std::string const line) | core::io::silent::SilentStruct | |
get_self_ptr() const | core::io::silent::SilentStruct | inline |
get_self_ptr() | core::io::silent::SilentStruct | inline |
get_silent_energies() | core::io::silent::SilentStruct | inline |
get_silent_energy(std::string const &scorename) const | core::io::silent::SilentStruct | |
get_string_value(std::string const &scorename) const | core::io::silent::SilentStruct | |
has_comment(std::string const &name) const | core::io::silent::SilentStruct | |
has_energy(std::string const scorename) const | core::io::silent::SilentStruct | |
has_parent_remark(std::string const &name) const | core::io::silent::SilentStruct | |
init_from_lines(utility::vector1< std::string > const &lines, SilentFileData &container) | core::io::silent::ScoreFileSilentStruct | virtual |
mem_footprint() const | core::io::silent::SilentStruct | inlinevirtual |
nonconst_other_struct_list() | core::io::silent::SilentStruct | inline |
nres() const | core::io::silent::SilentStruct | inlinevirtual |
nres(Size nres) | core::io::silent::SilentStruct | inline |
one_letter_sequence() const | core::io::silent::SilentStruct | |
operator=(ScoreFileSilentStruct const &src) | core::io::silent::ScoreFileSilentStruct | |
core::io::silent::SilentStruct::operator=(SilentStruct const &) | core::io::silent::SilentStruct | |
other_struct_list() const | core::io::silent::SilentStruct | inline |
parse_energies(std::istream &input, utility::vector1< std::string > const &energy_names) | core::io::silent::SilentStruct | |
precision(core::Size precision) | core::io::silent::SilentStruct | |
precision() const | core::io::silent::SilentStruct | |
print_comments(std::ostream &out) const | core::io::silent::SilentStruct | virtual |
print_conformation(std::ostream &output) const | core::io::silent::ScoreFileSilentStruct | virtual |
print_header(std::ostream &out) const | core::io::silent::ScoreFileSilentStruct | virtual |
print_parent_remarks(std::ostream &out) const | core::io::silent::SilentStruct | |
print_residue_numbers(std::ostream &out) const | core::io::silent::SilentStruct | virtual |
print_score_header(std::ostream &out) const | core::io::silent::SilentStruct | virtual |
print_scores(std::ostream &out) const | core::io::silent::SilentStruct | virtual |
print_submotif_info(std::ostream &out) const | core::io::silent::SilentStruct | virtual |
read_score_headers(std::string const &line, utility::vector1< std::string > &enames, SilentFileData &container) | core::io::silent::SilentStruct | |
read_sequence(std::string const &line) | core::io::silent::SilentStruct | |
rename_energies() | core::io::silent::SilentStruct | |
residue_numbers_into_pose(pose::Pose &pose) const | core::io::silent::SilentStruct | |
ScoreFileSilentStruct() | core::io::silent::ScoreFileSilentStruct | inline |
ScoreFileSilentStruct(core::pose::Pose const &pose, std::string tag="empty_tag") | core::io::silent::ScoreFileSilentStruct | |
scoreline_prefix(std::string const &prefix) | core::io::silent::SilentStruct | |
scoreline_prefix() const | core::io::silent::SilentStruct | |
sequence() const | core::io::silent::SilentStruct | inline |
sequence(core::sequence::AnnotatedSequence const &sequence) | core::io::silent::SilentStruct | inline |
set_chains(utility::vector1< char > const &chains) | core::io::silent::SilentStruct | inline |
set_decoy_tag(std::string const &tag) | core::io::silent::SilentStruct | inline |
set_force_bitflip(bool const setting) | core::io::silent::SilentStruct | inlinevirtual |
set_full_model_parameters(core::pose::full_model_info::FullModelParametersCOP setting) | core::io::silent::SilentStruct | inline |
set_residue_numbers(utility::vector1< Size > const &residue_numbers) | core::io::silent::SilentStruct | inline |
set_segment_IDs(utility::vector1< std::string > const &segids) | core::io::silent::SilentStruct | inline |
set_tag_from_pose(const core::pose::Pose &pose) | core::io::silent::SilentStruct | |
set_valid_energies(utility::vector1< std::string > valid) | core::io::silent::SilentStruct | |
silent_energies(utility::vector1< SilentEnergy > const &new_se) | core::io::silent::SilentStruct | inline |
SilentStruct() | core::io::silent::SilentStruct | |
SilentStruct(SilentStruct const &) | core::io::silent::SilentStruct | |
sort_silent_scores() | core::io::silent::SilentStruct | |
~ScoreFileSilentStruct() | core::io::silent::ScoreFileSilentStruct | inline |
~SilentStruct() | core::io::silent::SilentStruct | virtual |