alpha_beta_pattern_ | protocols::ncbb::SecStructFinder | private |
alpha_to_beta(std::string alpha) | protocols::ncbb::SecStructFinder | private |
apply(Pose &pose) | protocols::ncbb::SecStructFinder | virtual |
bin_size_ | protocols::ncbb::SecStructFinder | private |
cart_ | protocols::ncbb::SecStructFinder | private |
clear_info() | protocols::moves::Mover | inlinevirtual |
clone() const | protocols::ncbb::SecStructFinder | virtual |
constrain_ | protocols::ncbb::SecStructFinder | private |
create() | protocols::moves::Mover | virtual |
dihedral_max_ | protocols::ncbb::SecStructFinder | private |
dihedral_min_ | protocols::ncbb::SecStructFinder | private |
dihedral_pattern_ | protocols::ncbb::SecStructFinder | private |
dissimilarity_ | protocols::ncbb::SecStructFinder | private |
dump_threshold_ | protocols::ncbb::SecStructFinder | private |
expand_pattern_to_fit(std::string pattern, Size length) | protocols::ncbb::SecStructFinder | private |
Filters_map typedef | protocols::moves::Mover | |
fresh_instance() const | protocols::ncbb::SecStructFinder | inlinevirtual |
get_additional_output() | protocols::moves::Mover | virtual |
get_current_job() const | protocols::moves::Mover | |
get_current_tag() const | protocols::moves::Mover | inline |
get_input_pose() const | protocols::moves::Mover | |
get_last_move_status() const | protocols::moves::Mover | |
get_name() const | protocols::ncbb::SecStructFinder | inlinevirtual |
get_native_pose() const | protocols::moves::Mover | |
get_self_ptr() const | protocols::moves::Mover | inline |
get_self_ptr() | protocols::moves::Mover | inline |
get_self_weak_ptr() const | protocols::moves::Mover | inline |
get_self_weak_ptr() | protocols::moves::Mover | inline |
get_type() const | protocols::moves::Mover | inline |
info() | protocols::moves::Mover | inlinevirtual |
info() const | protocols::moves::Mover | inlinevirtual |
initialize_rtype_vector(utility::vector1< core::chemical::ResidueType > &restypes) | protocols::ncbb::SecStructFinder | private |
last_proposal_density_ratio() | protocols::moves::Mover | inlinevirtual |
make_filename(Size number_dihedrals, utility::vector1< Real > dihedrals) | protocols::ncbb::SecStructFinder | private |
max_length_ | protocols::ncbb::SecStructFinder | private |
min_everything_ | protocols::ncbb::SecStructFinder | private |
min_length_ | protocols::ncbb::SecStructFinder | private |
Mover() | protocols::moves::Mover | |
Mover(std::string const &type_name) | protocols::moves::Mover | |
Mover(Mover const &other) | protocols::moves::Mover | |
name() | protocols::moves::Mover | inlinestatic |
operator=(Mover const &other) | protocols::moves::Mover | |
parse_my_tag(utility::tag::TagCOP, basic::datacache::DataMap &, protocols::filters::Filters_map const &, protocols::moves::Movers_map const &, core::pose::Pose const &) | protocols::ncbb::SecStructFinder | virtual |
Pose typedef | protocols::moves::Mover | |
PoseCOP typedef | protocols::moves::Mover | |
register_options() | protocols::moves::Mover | inlinestatic |
reinitialize_for_each_job() const | protocols::moves::Mover | virtual |
reinitialize_for_new_input() const | protocols::moves::Mover | virtual |
reset_status() | protocols::moves::Mover | |
residue_ | protocols::ncbb::SecStructFinder | private |
score_fxn_ | protocols::ncbb::SecStructFinder | private |
SecStructFinder() | protocols::ncbb::SecStructFinder | |
SecStructFinder(std::string residue, Size min_length=5, Size max_length=5, Real bin_size=10, Real dissimilarity=10, Real dihedral_min=-180, Real dihedral_max=180, Real dump_threshold=-10000, std::string dihedral_pattern="A", std::string alpha_beta_pattern="A", bool min_everything=false, bool cart=false, bool constrain=false) | protocols::ncbb::SecStructFinder | |
set_current_job(protocols::jobdist::BasicJobCOP job) | protocols::moves::Mover | |
set_current_tag(std::string const &new_tag) | protocols::moves::Mover | inlinevirtual |
set_input_pose(PoseCOP pose) | protocols::moves::Mover | virtual |
set_last_move_status(MoverStatus status) | protocols::moves::Mover | protected |
set_native_pose(PoseCOP pose) | protocols::moves::Mover | virtual |
set_type(std::string const &setting) | protocols::moves::Mover | inline |
show(std::ostream &output=std::cout) const | protocols::moves::Mover | virtual |
show_current_dihedrals(Size number_dihedral_sets, utility::vector1< char > uniqs, utility::vector1< Real > dihedrals) | protocols::ncbb::SecStructFinder | private |
Strings typedef | protocols::moves::Mover | |
TagCOP typedef | protocols::moves::Mover | |
test_move(Pose &pose) | protocols::moves::Mover | inlinevirtual |
too_similar(Size i, Size j, utility::vector1< Real > dihedrals) | protocols::ncbb::SecStructFinder | private |
type() const | protocols::moves::Mover | inline |
type(const std::string &type_in) | protocols::moves::Mover | inline |
uniq_refers_to_beta(char uniq) | protocols::ncbb::SecStructFinder | private |
~Mover() | protocols::moves::Mover | virtual |
~SecStructFinder() | protocols::ncbb::SecStructFinder | inlinevirtual |