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core::pack::task::ResidueLevelTask_ Member List

This is the complete list of members for core::pack::task::ResidueLevelTask_, including all inherited members.

add_behavior(std::string const &behavior) overridecore::pack::task::ResidueLevelTask_virtual
adducts() const overridecore::pack::task::ResidueLevelTask_virtual
adducts_core::pack::task::ResidueLevelTask_private
allowed_residue_types() const overridecore::pack::task::ResidueLevelTask_virtual
allowed_residue_types_core::pack::task::ResidueLevelTask_private
allowed_residue_types_begin() const overridecore::pack::task::ResidueLevelTask_virtual
allowed_residue_types_end() const overridecore::pack::task::ResidueLevelTask_virtual
and_extrachi_cutoff(Size num_neighbors_to_be_called_buried) overridecore::pack::task::ResidueLevelTask_virtual
append_rotamer_operation(rotamer_set::RotamerOperationOP rotop) overridecore::pack::task::ResidueLevelTask_virtual
append_rotamerset_operation(rotamer_set::RotamerSetOperationOP rotsetop) overridecore::pack::task::ResidueLevelTask_virtual
behaviors_core::pack::task::ResidueLevelTask_private
being_designed() const overridecore::pack::task::ResidueLevelTask_virtual
being_packed() const overridecore::pack::task::ResidueLevelTask_virtual
command_string() const overridecore::pack::task::ResidueLevelTask_virtual
design_disabled_core::pack::task::ResidueLevelTask_private
designing_core::pack::task::ResidueLevelTask_private
determine_if_designing()core::pack::task::ResidueLevelTask_private
determine_if_repacking()core::pack::task::ResidueLevelTask_private
disable_restypes(utility::vector1< std::string > const &basenames_to_disable) overridecore::pack::task::ResidueLevelTask_virtual
disable_restypes_with_at_least_one_property(utility::vector1< core::chemical::ResidueProperty > const &properties) overridecore::pack::task::ResidueLevelTask_virtual
disabled_core::pack::task::ResidueLevelTask_private
do_restrict_absent_canonical_aas(utility::vector1< bool > const &allowed_aas)core::pack::task::ResidueLevelTask_private
ex1() const overridecore::pack::task::ResidueLevelTask_virtual
ex1_core::pack::task::ResidueLevelTask_private
ex1_sample_level() const overridecore::pack::task::ResidueLevelTask_virtual
ex1_sample_level_core::pack::task::ResidueLevelTask_private
ex1aro() const overridecore::pack::task::ResidueLevelTask_virtual
ex1aro_core::pack::task::ResidueLevelTask_private
ex1aro_exposed() const overridecore::pack::task::ResidueLevelTask_virtual
ex1aro_exposed_core::pack::task::ResidueLevelTask_private
ex1aro_exposed_sample_level() const overridecore::pack::task::ResidueLevelTask_virtual
ex1aro_exposed_sample_level_core::pack::task::ResidueLevelTask_private
ex1aro_sample_level() const overridecore::pack::task::ResidueLevelTask_virtual
ex1aro_sample_level_core::pack::task::ResidueLevelTask_private
ex2() const overridecore::pack::task::ResidueLevelTask_virtual
ex2_core::pack::task::ResidueLevelTask_private
ex2_sample_level() const overridecore::pack::task::ResidueLevelTask_virtual
ex2_sample_level_core::pack::task::ResidueLevelTask_private
ex2aro() const overridecore::pack::task::ResidueLevelTask_virtual
ex2aro_core::pack::task::ResidueLevelTask_private
ex2aro_exposed() const overridecore::pack::task::ResidueLevelTask_virtual
ex2aro_exposed_core::pack::task::ResidueLevelTask_private
ex2aro_exposed_sample_level() const overridecore::pack::task::ResidueLevelTask_virtual
ex2aro_exposed_sample_level_core::pack::task::ResidueLevelTask_private
ex2aro_sample_level() const overridecore::pack::task::ResidueLevelTask_virtual
ex2aro_sample_level_core::pack::task::ResidueLevelTask_private
ex3() const overridecore::pack::task::ResidueLevelTask_virtual
ex3_core::pack::task::ResidueLevelTask_private
ex3_sample_level() const overridecore::pack::task::ResidueLevelTask_virtual
ex3_sample_level_core::pack::task::ResidueLevelTask_private
ex4() const overridecore::pack::task::ResidueLevelTask_virtual
ex4_core::pack::task::ResidueLevelTask_private
ex4_sample_level() const overridecore::pack::task::ResidueLevelTask_virtual
ex4_sample_level_core::pack::task::ResidueLevelTask_private
exdna_sample_level() const overridecore::pack::task::ResidueLevelTask_virtual
exdna_sample_level_core::pack::task::ResidueLevelTask_private
extrachi_cutoff() const overridecore::pack::task::ResidueLevelTask_virtual
extrachi_cutoff_core::pack::task::ResidueLevelTask_private
extrachi_sample_level(bool buried, int chi, chemical::ResidueType const &concrete_residue) const overridecore::pack::task::ResidueLevelTask_virtual
fix_his_tautomer() const overridecore::pack::task::ResidueLevelTask_virtual
fix_his_tautomer_core::pack::task::ResidueLevelTask_private
flip_HNQ() const overridecore::pack::task::ResidueLevelTask_virtual
flip_HNQ_core::pack::task::ResidueLevelTask_private
get_ex_flags(Size chiid, Size const exaro_sample_level, Size const ex_sample_level) const core::pack::task::ResidueLevelTask_private
get_original_residue() const overridecore::pack::task::ResidueLevelTask_virtual
get_original_residue_set() const overridecore::pack::task::ResidueLevelTask_virtual
has_behavior(std::string const &behavior) const overridecore::pack::task::ResidueLevelTask_virtual
has_behavior() const overridecore::pack::task::ResidueLevelTask_virtual
include_current() const overridecore::pack::task::ResidueLevelTask_virtual
include_current_core::pack::task::ResidueLevelTask_private
include_virtual_side_chain() const overridecore::pack::task::ResidueLevelTask_virtual
include_virtual_side_chain_core::pack::task::ResidueLevelTask_private
initialize_extra_rotamer_flags_from_command_line() overridecore::pack::task::ResidueLevelTask_virtual
initialize_extra_rotamer_flags_from_options(utility::options::OptionCollection const &options) overridecore::pack::task::ResidueLevelTask_virtual
initialize_from_command_line() overridecore::pack::task::ResidueLevelTask_virtual
initialize_from_options(utility::options::OptionCollection const &options) overridecore::pack::task::ResidueLevelTask_virtual
is_original_type(chemical::ResidueTypeCOP type) const overridecore::pack::task::ResidueLevelTask_virtual
list_options_read(utility::options::OptionKeyList &read_options)core::pack::task::ResidueLevelTaskstatic
mode_tokens_core::pack::task::ResidueLevelTask_private
nonconst_rna_task() overridecore::pack::task::ResidueLevelTask_privatevirtual
operate_on_ex1() const overridecore::pack::task::ResidueLevelTask_virtual
operate_on_ex1_core::pack::task::ResidueLevelTask_private
operate_on_ex2() const overridecore::pack::task::ResidueLevelTask_virtual
operate_on_ex2_core::pack::task::ResidueLevelTask_private
operate_on_ex3() const overridecore::pack::task::ResidueLevelTask_virtual
operate_on_ex3_core::pack::task::ResidueLevelTask_private
operate_on_ex4() const overridecore::pack::task::ResidueLevelTask_virtual
operate_on_ex4_core::pack::task::ResidueLevelTask_private
optimize_h() const overridecore::pack::task::ResidueLevelTask_virtual
optimize_H_mode_core::pack::task::ResidueLevelTask_private
or_adducts(bool setting) overridecore::pack::task::ResidueLevelTask_virtual
or_ex1(bool ex1) overridecore::pack::task::ResidueLevelTask_virtual
or_ex1_sample_level(ExtraRotSample ex1_sample_level) overridecore::pack::task::ResidueLevelTask_virtual
or_ex1aro(bool ex1aro) overridecore::pack::task::ResidueLevelTask_virtual
or_ex1aro_exposed(bool ex1aro_exposed) overridecore::pack::task::ResidueLevelTask_virtual
or_ex1aro_exposed_sample_level(ExtraRotSample ex1aro_exposed_sample_level) overridecore::pack::task::ResidueLevelTask_virtual
or_ex1aro_sample_level(ExtraRotSample ex1aro_sample_level) overridecore::pack::task::ResidueLevelTask_virtual
or_ex2(bool ex2) overridecore::pack::task::ResidueLevelTask_virtual
or_ex2_sample_level(ExtraRotSample ex2_sample_level) overridecore::pack::task::ResidueLevelTask_virtual
or_ex2aro(bool ex2aro_only) overridecore::pack::task::ResidueLevelTask_virtual
or_ex2aro_exposed(bool ex2aro_exposed) overridecore::pack::task::ResidueLevelTask_virtual
or_ex2aro_exposed_sample_level(ExtraRotSample ex2aro_exposed_sample_level) overridecore::pack::task::ResidueLevelTask_virtual
or_ex2aro_sample_level(ExtraRotSample ex2aro_only_sample_level) overridecore::pack::task::ResidueLevelTask_virtual
or_ex3(bool ex3) overridecore::pack::task::ResidueLevelTask_virtual
or_ex3_sample_level(ExtraRotSample ex3_sample_level) overridecore::pack::task::ResidueLevelTask_virtual
or_ex4(bool ex4) overridecore::pack::task::ResidueLevelTask_virtual
or_ex4_sample_level(ExtraRotSample ex4_sample_level) overridecore::pack::task::ResidueLevelTask_virtual
or_exdna_sample_level(ExtraRotSample exdna_sample_level) overridecore::pack::task::ResidueLevelTask_virtual
or_fix_his_tautomer(bool setting) overridecore::pack::task::ResidueLevelTask_virtual
or_flip_HNQ(bool setting) overridecore::pack::task::ResidueLevelTask_virtual
or_include_current(bool include_current) overridecore::pack::task::ResidueLevelTask_virtual
or_include_virtual_side_chain(bool setting) overridecore::pack::task::ResidueLevelTask_virtual
or_operate_on_ex1(bool operate) overridecore::pack::task::ResidueLevelTask_virtual
or_operate_on_ex2(bool operate) overridecore::pack::task::ResidueLevelTask_virtual
or_operate_on_ex3(bool operate) overridecore::pack::task::ResidueLevelTask_virtual
or_operate_on_ex4(bool operate) overridecore::pack::task::ResidueLevelTask_virtual
or_optimize_h(bool setting) overridecore::pack::task::ResidueLevelTask_virtual
or_preserve_c_beta(bool setting) overridecore::pack::task::ResidueLevelTask_virtual
original_residue_type_core::pack::task::ResidueLevelTask_private
original_residue_type_set_core::pack::task::ResidueLevelTask_private
packer_palette_core::pack::task::ResidueLevelTask_private
preserve_c_beta() const overridecore::pack::task::ResidueLevelTask_virtual
preserve_c_beta_core::pack::task::ResidueLevelTask_private
prevent_repacking() overridecore::pack::task::ResidueLevelTask_virtual
print_allowed_types(std::ostream &os) const overridecore::pack::task::ResidueLevelTask_virtual
refresh_ex1_sample_levels()core::pack::task::ResidueLevelTask_private
refresh_ex2_sample_levels()core::pack::task::ResidueLevelTask_private
refresh_ex3_sample_levels()core::pack::task::ResidueLevelTask_private
refresh_ex4_sample_levels()core::pack::task::ResidueLevelTask_private
repacking_core::pack::task::ResidueLevelTask_private
ResidueLevelTask_(conformation::Residue const &original_residue, core::pose::Pose const &pose, core::pack::palette::PackerPaletteCOP packer_palette_in=utility::pointer::make_shared< core::pack::palette::DefaultPackerPalette >())core::pack::task::ResidueLevelTask_
ResidueLevelTask_()core::pack::task::ResidueLevelTask_
ResidueTypeCOPList typedefcore::pack::task::ResidueLevelTask
ResidueTypeCOPListConstIter typedefcore::pack::task::ResidueLevelTask
ResidueTypeCOPListIter typedefcore::pack::task::ResidueLevelTask
restrict_absent_canonical_aas(utility::vector1< bool > const &) overridecore::pack::task::ResidueLevelTask_virtual
restrict_absent_canonical_aas(utility::vector1< bool > const &allowed_aas, std::string const &mode) overridecore::pack::task::ResidueLevelTask_virtual
restrict_absent_nas(utility::vector1< chemical::AA > const &keep_nas) overridecore::pack::task::ResidueLevelTask_virtual
restrict_nonnative_canonical_aas(utility::vector1< bool > const &allowed_aas) overridecore::pack::task::ResidueLevelTask_virtual
restrict_restypes(utility::vector1< std::string > const &basenames_to_keep) overridecore::pack::task::ResidueLevelTask_virtual
restrict_to_repacking() overridecore::pack::task::ResidueLevelTask_virtual
restrict_to_restypes_with_all_properties(utility::vector1< core::chemical::ResidueProperty > const &properties) overridecore::pack::task::ResidueLevelTask_virtual
restrict_to_restypes_with_at_least_one_property(utility::vector1< core::chemical::ResidueProperty > const &properties) overridecore::pack::task::ResidueLevelTask_virtual
rna_task() const overridecore::pack::task::ResidueLevelTask_privatevirtual
rna_task_core::pack::task::ResidueLevelTask_private
rotamer_operations() const overridecore::pack::task::ResidueLevelTask_virtual
rotamer_operations_core::pack::task::ResidueLevelTask_private
rotamer_set_operation_begin() const overridecore::pack::task::ResidueLevelTask_virtual
rotamer_set_operation_end() const overridecore::pack::task::ResidueLevelTask_virtual
rotsetops_core::pack::task::ResidueLevelTask_private
sample_proton_chi(bool setting) overridecore::pack::task::ResidueLevelTask_virtual
sample_proton_chi() const overridecore::pack::task::ResidueLevelTask_virtual
sample_proton_chi_core::pack::task::ResidueLevelTask_private
target_residue_type_core::pack::task::ResidueLevelTask_private
target_type(chemical::ResidueTypeCOP type) overridecore::pack::task::ResidueLevelTask_virtual
target_type(chemical::AA aa) overridecore::pack::task::ResidueLevelTask_virtual
target_type(std::string name) overridecore::pack::task::ResidueLevelTask_virtual
target_type() const overridecore::pack::task::ResidueLevelTask_virtual
task_mode() const core::pack::task::ResidueLevelTask_private
update_commutative(ResidueLevelTask const &res_task_in)core::pack::task::ResidueLevelTask_virtual
update_intersection(ResidueLevelTask const &res_task_in)core::pack::task::ResidueLevelTask_virtual
update_union(ResidueLevelTask const &res_task_in)core::pack::task::ResidueLevelTask_virtual
~ResidueLevelTask()core::pack::task::ResidueLevelTaskvirtual
~ResidueLevelTask_() overridecore::pack::task::ResidueLevelTask_
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