Utility functions for the residue selector classes, primarily, in constructing XML-Schema type definitions.
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| static basic::Tracer | TR ("core.select.residue_selector.util") |
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| std::map< core::Size, core::Size > | core::select::residue_selector::get_residue_mapping_from_selectors (select::residue_selector::ResidueSelectorCOP selector, select::residue_selector::ResidueSelectorCOP selector_ref, core::pose::Pose const &pose, core::pose::Pose const &ref_pose, bool desymmetrize_selectors=true) |
| | Determine the residue mapping by residue selector and the reference selector. If both are null, will get a map of all residues. De-symmetrizes both residue selectors. More...
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| std::vector< std::map< core::Size, core::Size > > | core::select::residue_selector::get_cyclic_pose_residue_mappings_from_selectors (select::residue_selector::ResidueSelectorCOP residue_selector, select::residue_selector::ResidueSelectorCOP residue_selector_ref, core::pose::Pose const &pose, core::pose::Pose const &ref_pose, bool desymmetrize_selectors) |
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| std::string | core::select::residue_selector::complex_type_name_for_residue_selector (std::string const &rs_type) |
| | Used to name the xs:complexType for a residue selector that is created with the "rs_type" tag-name. Does so by prepending "rs_" and appending "Type" to the "rs_type". E.g., "rs_AndType" would be the name given to the complexType to describe the format of the AndResidueSelector. More...
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| void | core::select::residue_selector::xsd_type_definition_w_attributes (utility::tag::XMLSchemaDefinition &xsd, std::string const &rs_type, std::string const &rs_description, utility::tag::AttributeList const &attributes) |
| | Define the XML schema definition for a ResidueSelector that contains no other ResidueSelectors but may contain some number of attributes (aka options). More...
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| void | core::select::residue_selector::xsd_type_definition_w_attributes_and_optional_subselector (utility::tag::XMLSchemaDefinition &xsd, std::string const &rs_type, std::string const &rs_description, utility::tag::AttributeList const &attributes) |
| | Define the XML schema definition for a ResidueSelector that contains a single ResidueSelector in its set of sub-elements (aka sub-tags) and may contain some number of attributes (aka options). More...
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| void | core::select::residue_selector::xsd_type_definition_w_attributes_and_optional_subselectors (utility::tag::XMLSchemaDefinition &xsd, std::string const &rs_type, std::string const &rs_description, utility::tag::AttributeList const &attributes) |
| | Define the XML schema definition for a ResidueSelector that contains more than one ResidueSelector in its set of sub-elements (aka sub-tags) and may contain some number of attributes (aka options). More...
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| void | core::select::residue_selector::xsd_type_definition_w_attributes_and_optional_subselectors (utility::tag::XMLSchemaDefinition &xsd, std::string const &rs_type, std::string const &rs_description, core::Size min_occurrence, core::Size max_occurrence, utility::tag::AttributeList const &attributes) |
| | Define the XML schema definition for a ResidueSelector that contains more than one ResidueSelector in its set of sub-elements (aka sub-tags) and may contain some number of attributes (aka options). More...
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| ResidueSelectorCOP | core::select::residue_selector::parse_residue_selector (utility::tag::TagCOP tag, basic::datacache::DataMap const &data, std::string const &option_name="residue_selector") |
| | returns a residue selector given a tag and datamap More...
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| void | core::select::residue_selector::attributes_for_parse_residue_selector_default_option_name (utility::tag::AttributeList &attlist, std::string const &documentation_string) |
| | Companion function for parse_residue_selector. More...
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| std::string | core::select::residue_selector::parse_residue_selector_xsd_documentation () |
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| void | core::select::residue_selector::attributes_for_parse_residue_selector (utility::tag::AttributeList &attlist, std::string const &option_name="residue_selector", std::string const &documentation_string="") |
| | Companion function for parse_residue_selector. More...
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| void | core::select::residue_selector::attributes_for_parse_residue_selector_when_required (utility::tag::AttributeList &attlist, std::string const &option_name="residue_selector", std::string const &documentation_string="") |
| | Companion function for parse_residue_selector to be used when it is unacceptible for the parse_residue_selector function to return a null pointer. More...
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| ResidueSelectorCOP | core::select::residue_selector::get_residue_selector (std::string const &selector_name, basic::datacache::DataMap const &data) |
| | returns a residue selector given a selector's name and datamap More...
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| ResidueSelectorOP | core::select::residue_selector::get_embedded_residue_selector (utility::tag::TagCOP tag, basic::datacache::DataMap &datamap) |
| | returns a residue selector embeded in a tag. for example, the Chain selector in the example below: More...
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| utility::vector1< ResidueSelectorOP > | core::select::residue_selector::get_embedded_residue_selectors (utility::tag::TagCOP tag, basic::datacache::DataMap &datamap) |
| | returns residue selectors embeded in a tag. for example, the Chain selector in the example below: More...
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| bool | core::select::residue_selector::all_false_selection (ResidueSubset const &selection) |
| | Returns True if all the positions in the ResidueSubset are False. More...
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| bool | core::select::residue_selector::all_true_selection (ResidueSubset const &selection) |
| | Returns True if all the positions in the ResidueSubset are True. More...
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| bool | core::select::residue_selector::has_any_false_selection (ResidueSubset const &selection) |
| | Returns True if at least one position in the ResidueSubset is False. More...
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| bool | core::select::residue_selector::has_any_true_selection (ResidueSubset const &selection) |
| | Returns True if at least one position in the ResidueSubset is True. More...
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| core::Size | core::select::residue_selector::count_selected (ResidueSubset const &selection) |
| | Returns the number of selected residues in the ResidueSubset. More...
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| utility::vector1< core::Size > | core::select::residue_selector::selection_positions (ResidueSubset const &selection) |
| | Returns the Rosetta Numbering corresponding to the selected residues. More...
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| utility::vector1< core::Size > | core::select::residue_selector::unselection_positions (ResidueSubset const &selection) |
| | Returns the Rosetta Numbering corresponding to the unselected residues. More...
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| bool | core::select::residue_selector::are_selections_equal (ResidueSubset const &selection1, ResidueSubset const &selection2) |
| | Evaluate if two ResidueSubsets are equal. More...
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| std::string | core::select::residue_selector::represent_residue_selector (ResidueSubset const &selection, std::string const &is_true, std::string const &is_false) |
| | Returns a string representing the ResidueSubset (ยท for non selected, * for selected) More...
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| ResidueSelectorOP | core::select::residue_selector::OR_combine (ResidueSelectorOP sele1, ResidueSelectorOP sele2) |
| | If sele1 is already an OrResidueSelector, add sele2 to it. If not, return a new OrResidueSelector which combines the two. More...
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| ResidueSubset | core::select::residue_selector::OR_combine (ResidueSubset const &sele1, ResidueSubset const &sele2) |
| | Combine two residue subsets with OR logic. More...
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| ResidueSelectorOP | core::select::residue_selector::AND_combine (ResidueSelectorOP sele1, ResidueSelectorOP sele2) |
| | If sele1 is already an AndResidueSelector, add sele2 to it. If not, return a new AndResidueSelector which combines the two. More...
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| ResidueSubset | core::select::residue_selector::AND_combine (ResidueSubset const &sele1, ResidueSubset const &sele2) |
| | Combine two residue ssubsets with OR logic. More...
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| ResidueSelectorOP | core::select::residue_selector::parse_residue_selector_logic_string (basic::datacache::DataMap const &dm, utility::tag::TagCOP const &tag, std::string const &selector_logic_attribute_name="selector_logic") |
| | Read a string from the input tag with the indicated attribute name and interpret it as boolean logical operations on a set of existing ResidueSelectors that are already stored in the DataMap. More...
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| void | core::select::residue_selector::attributes_for_parse_residue_selector_logic_string (utility::tag::XMLSchemaDefinition &xsd, utility::tag::AttributeList &attributes, std::string const &selector_logic_attribute_name="selector_logic") |
| | Append an (optional) attribute that will be used in the call to parse_residue_selector_logic_string. More...
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| bool | core::select::residue_selector::regex_usable () |
| | test regex support More...
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| utility::vector1< core::select::residue_selector::ResidueSubset > | core::select::residue_selector::identify_ss_blocks_vec (utility::vector1< bool > const &subset) |
| | Will eventually replace standard function. More...
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| bool | core::select::residue_selector::all_L_dssp (core::pose::Pose const &pose) |
| | Is the DSSP all loop? A pose unfortunately starts with all L as the DSSP when creating a pose from seq and inserting residues as is done for segments. More...
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Utility functions for the residue selector classes, primarily, in constructing XML-Schema type definitions.
- Author
- Andrew Leaver-Fay (leave.nosp@m.rfa@.nosp@m.email.nosp@m..unc.nosp@m..edu)
