Class: Queries::TaxonName::Filter
- Inherits:
-
Query::Filter
- Object
- Query
- Query::Filter
- Queries::TaxonName::Filter
- Includes:
- Concerns::Citations, Concerns::Confidences, Concerns::DataAttributes, Concerns::Depictions, Concerns::Notes, Concerns::Tags, Helpers
- Defined in:
- lib/queries/taxon_name/filter.rb
Constant Summary collapse
- PARAMS =
[ :ancestors, :ancestrify, :author, :author_exact, :authors, :collecting_event_id, :collection_object_id, :combinations, :combinationify, :descendants, :descendants_max_depth, :epithet_only, :etymology, :latinized, :leaves, :name, :name_exact, :nomenclature_code, :nomenclature_date, :nomenclature_group, # !! different than autocomplete :not_specified, :original_combination, :otu_id, :otus, :rank, :relation_to_relationship, :sort, :taxon_name_relationship_target, :synonymify, :taxon_name_author_id_or, :taxon_name_id, :taxon_name_type, :type_metadata, :validify, :validity, :verbatim_name, :year, :year_end, :year_start, collection_object_id: [], collecting_event_id: [], combination_taxon_name_id: [], name: [], otu_id: [], parent_id: [], rank: [], taxon_name_author_id: [], taxon_name_classification: [], taxon_name_id: [], taxon_name_relationship: [ :subject_taxon_name_id, :object_taxon_name_id, :type, ], taxon_name_relationship_type_subject: [], taxon_name_relationship_type_object: [], taxon_name_relationship_type_either: [], type: [], ].freeze
Constants inherited from Query::Filter
Query::Filter::FILTER_QUERIES, Query::Filter::SUBQUERIES
Instance Attribute Summary collapse
-
#ancestors ⇒ Object
Boolean Ignored when taxon_name_id[].empty? Works as AND clause with descendants :(.
-
#ancestrify ⇒ Object
!! This parameter is not like the others, it is applied POST result, see also synonymify and validify, etc.
- #author ⇒ Object
-
#author_exact ⇒ Object
Boolean.
-
#authors ⇒ Object
- ‘true’ or ‘false’
-
on initialize whether the name has an author string, from any source, provided.
-
#collecting_event_id ⇒ Object
Array.
-
#collection_object_id ⇒ Object
Array.
-
#combination_taxon_name_id ⇒ Array
Taxon_name_ids for which all Combinations will be returned.
-
#combinationify ⇒ Object
!! This parameter is not like the others, it is applied POST result, see also synonymify and validify.
-
#combinations ⇒ Object
This parameter should be used along side species or genus group limits.
-
#descendants ⇒ Boolean
True - only descendants NOT SELF false - self AND descendants nil - ignored Ignored when taxon_name_id[].empty?.
-
#descendants_max_depth ⇒ Integer?
A positive integer indicating how many levels deep of descendants to retrieve.
- #epithet_only ⇒ Object
-
#etymology ⇒ Object
- ‘true’ or ‘false’
-
on initialize whether the name has etymology.
-
#geo_json ⇒ Object
Returns the value of attribute geo_json.
-
#latinized ⇒ Boolean?
&latinized=<“true”|“false”> if ‘true’ then return only genus group names with gender and species group names with part of speech if ‘false’ then return only genus group names without gender and species group names without part of speech if nil, ignore.
-
#leaves ⇒ Boolean?
TODO: inverse is duplicated in autocomplete.
-
#name ⇒ Array
Matches against cached.
-
#name_exact ⇒ Object
Boolean.
-
#nomenclature_code ⇒ String?
Accessor for attr :nomenclature_code, wrap with needed wildcards.
-
#nomenclature_date ⇒ Object
Boolean with/out cached nomenclature date set.
-
#nomenclature_group ⇒ String?
Accessor for attr :nomenclature_group, wrap with needed wildcards.
-
#not_specified ⇒ Object
Returns the value of attribute not_specified.
-
#original_combination ⇒ Boolean?
True - name has at least one element of original combination false - name has no element of original combination nil - ignored.
-
#otu_id ⇒ Array?
One or more OTU ids.
-
#otus ⇒ Object
- ‘true’ or ‘false’
-
on initialize whether the name has an Otu.
-
#parent_id ⇒ Object
Return the taxon names with this/these parent_ids.
- #rank ⇒ Array
-
#relation_to_relationship ⇒ String?
&relation_to_relationship=<subject|object|either> All names that are subject|object|either of any relationship.
- #sort ⇒ String?
-
#synonymify ⇒ Object
!! This parameter is not like the others, it is applied POST result, see also combinationify and validify.
- #taxon_name_author_id ⇒ Array
- #taxon_name_author_id_or ⇒ Boolean
- #taxon_name_classification ⇒ Object
-
#taxon_name_id ⇒ Object
Return the taxon name(s) with this/these ids.
-
#taxon_name_relationship ⇒ Object
Each entry must have a ‘type’ Each entry must have one (and only one) of ‘subject_taxon_name_id’ or ‘object_taxon_name_id’.
-
#taxon_name_relationship_target ⇒ Boolean
Applies only to taxon_name_relationship_query_facet, is only present in queries sent from Filter TaxonNameRelationship.
- #taxon_name_relationship_type_either ⇒ Object
- #taxon_name_relationship_type_object ⇒ Object
- #taxon_name_relationship_type_subject ⇒ Object
-
#taxon_name_type ⇒ String?
&taxon_name_type=<Protonym|Combination|Hybrid>.
-
#type_metadata ⇒ Object
- ‘true’ or ‘false’
-
on initialize whether the name has TypeMaterial.
-
#validify ⇒ Object
name is returned !! This param is not like the others.
-
#validity ⇒ Object
- ‘true’ or ‘false’
-
on initialize true if only valid, false if only invalid, nil if both.
-
#verbatim_name ⇒ Object
Boolean if true then ‘verbatim_name` is populated.
-
#year ⇒ Object
Matches against cached_author_year.
-
#year_end ⇒ Object
Matches against cached_nomenclature_date.
-
#year_start ⇒ Object
Matches against cached_nomenclature_date.
Attributes inherited from Query::Filter
#api, #asserted_distribution_query, #biological_association_query, #biological_associations_graph_query, #collecting_event_query, #collection_object_query, #content_query, #controlled_vocabulary_term_query, #conveyance_query, #data_attribute_query, #depiction_query, #descriptor_query, #document_query, #dwc_occurrence_query, #extract_query, #field_occurrence_query, #image_query, #loan_query, #object_global_id, #observation_query, #order_by, #otu_query, #page, #paginate, #params, #per, #person_query, #project_id, #recent, #recent_target, #roll_call, #sound_query, #taxon_name_query, #taxon_name_relationship_query, #venn, #venn_ignore_pagination, #venn_mode
Attributes inherited from Query
Instance Method Summary collapse
- #all(nil_empty = false) ⇒ ActiveRecord::Relation
-
#ancestor_facet ⇒ Object
A merge facet.
- #ancestrify_result(q) ⇒ Object
- #and_clauses ⇒ ActiveRecord::Relation
- #asserted_distribution_query_facet ⇒ Object
- #author_facet ⇒ Object
-
#authors_facet ⇒ Object
This is not true! It includes records that are year only.
- #biological_association_query_facet ⇒ Object
- #collecting_event_id_facet ⇒ Object
- #collecting_event_query_facet ⇒ Object
- #collection_object_id_facet ⇒ Object
- #collection_object_query_facet ⇒ Object
- #combination_taxon_name_id_facet ⇒ Object
- #combinationify_result(q) ⇒ Object
- #combinations_facet ⇒ Object
-
#descendant_facet ⇒ Object
Scope match only names that are a descendant of some taxon_name_id.
- #geo_json_facet ⇒ Object
-
#initialize(query_params) ⇒ Filter
constructor
A new instance of Filter.
-
#latinized_facet ⇒ Object
Scope.
-
#leaves_facet ⇒ Object
Scope.
- #merge_clauses ⇒ Object
-
#model_id_facet ⇒ Object
Overrides base class.
- #name_facet ⇒ Object
- #nomenclature_date_facet ⇒ Object
- #not_specified_facet ⇒ Object
- #order_clause(query) ⇒ Object
- #original_combination_facet ⇒ Object
- #otu_id_facet ⇒ Object
- #otu_query_facet ⇒ Object
-
#otus_facet ⇒ Object
Scope.
- #parent_id_facet ⇒ Object
- #rank_facet ⇒ Arel::Nodes::Grouping?
-
#relation_to_relationship_facet ⇒ Object
Scope.
- #synonimify_result(q) ⇒ Object
- #taxon_name_author_id_facet ⇒ Object
-
#taxon_name_classification_facet ⇒ Object
Scope.
-
#taxon_name_relationship_facet(hsh) ⇒ Object
Scope wrapped in descendant_facet!.
- #taxon_name_relationship_query_facet ⇒ Object
-
#taxon_name_relationship_type_facet ⇒ Object
Scope.
- #taxon_name_type_facet ⇒ Object
-
#type_metadata_facet ⇒ Object
Scope.
- #validify_result(q) ⇒ Object
- #validity_facet ⇒ Object
- #verbatim_name_facet ⇒ Object
-
#with_etymology_facet ⇒ Object
Scope.
- #with_nomenclature_code ⇒ Arel::Nodes::Grouping?
- #with_nomenclature_group ⇒ Arel::Nodes::Grouping?
- #year_facet ⇒ Object
- #year_range_facet ⇒ Object
Methods included from Helpers
#boolean_param, #integer_param
Methods inherited from Query::Filter
#all_and_clauses, #all_merge_clauses, #annotator_and_clauses, #annotator_merge_clauses, annotator_params, api_except_params, api_excluded_params, #apply_venn, #attribute_exact_facet, base_filter, base_query_name, base_query_to_h, #deep_permit, #disable_paging, included_annotator_facets, instantiated_base_filter, inverted_subqueries, #object_global_id_facet, #only_project?, #paging_state, params, #permitted_params, #process_url_into_params, #project_id_facet, query_name, #set_nested_queries, #set_paging, set_paging, #shared_and_clauses, #subquery_vector, #target_and_clauses, #venn_query
Methods inherited from Query
#alphabetic_strings, #alphanumeric_strings, base_name, #base_name, #base_query, #build_terms, #cached_facet, #end_wildcard, #levenshtein_distance, #match_ordered_wildcard_pieces_in_cached, #no_terms?, referenced_klass, #referenced_klass, #referenced_klass_except, #referenced_klass_intersection, #referenced_klass_union, #start_and_end_wildcard, #start_wildcard, #table, #wildcard_pieces
Constructor Details
#initialize(query_params) ⇒ Filter
Returns a new instance of Filter.
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# File 'lib/queries/taxon_name/filter.rb', line 340 def initialize(query_params) super @ancestors = boolean_param(params, :ancestors) @ancestrify = boolean_param(params, :ancestrify) @author = params[:author] @author_exact = boolean_param(params, :author_exact) @authors = boolean_param(params, :authors) @collecting_event_id = params[:collecting_event_id] @collection_object_id = params[:collection_object_id] @combination_taxon_name_id = params[:combination_taxon_name_id] @combinations = boolean_param(params, :combinations) @combinationify = boolean_param(params, :combinationify) @descendants = boolean_param(params, :descendants) @descendants_max_depth = params[:descendants_max_depth] @etymology = boolean_param(params, :etymology) @epithet_only = params[:epithet_only] @latinized = boolean_param(params, :latinized) @geo_json = params[:geo_json] @leaves = boolean_param(params, :leaves) @name = params[:name] @name_exact = boolean_param(params, :name_exact) @nomenclature_date = boolean_param(params, :nomenclature_date) @nomenclature_code = params[:nomenclature_code] if params[:nomenclature_code].present? @nomenclature_group = params[:nomenclature_group] if params[:nomenclature_group].present? @not_specified = boolean_param(params, :not_specified) @otu_id = params[:otu_id] @otus = boolean_param(params, :otus) @original_combination = boolean_param(params, :original_combination) @parent_id = params[:parent_id] @rank = params[:rank] @relation_to_relationship = params[:relation_to_relationship] @sort = params[:sort] @synonymify = boolean_param(params, :synonymify) @taxon_name_author_id = params[:taxon_name_author_id] @taxon_name_author_id_or = boolean_param(params, :taxon_name_author_id_or) @taxon_name_classification = params[:taxon_name_classification] || [] @taxon_name_id = params[:taxon_name_id] @taxon_name_relationship = params[:taxon_name_relationship] || [] @taxon_name_relationship_target = params[:taxon_name_relationship_target] @taxon_name_relationship_type_subject = params[:taxon_name_relationship_type_subject] || [] @taxon_name_relationship_type_object = params[:taxon_name_relationship_type_object] || [] @taxon_name_relationship_type_either = params[:taxon_name_relationship_type_either] || [] @taxon_name_type = params[:taxon_name_type] @type_metadata = boolean_param(params, :type_metadata) @validify = boolean_param(params, :validify) @validity = boolean_param(params, :validity) @verbatim_name = boolean_param(params, :verbatim_name) @year = params[:year] @year_end = params[:year_end] @year_start = params[:year_start] set_confidences_params(params) set_citations_params(params) set_depiction_params(params) set_notes_params(params) set_data_attributes_params(params) (params) end |
Instance Attribute Details
#ancestors ⇒ Object
Returns Boolean Ignored when taxon_name_id[].empty? Works as AND clause with descendants :(.
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# File 'lib/queries/taxon_name/filter.rb', line 78 def ancestors @ancestors end |
#ancestrify ⇒ Object
!! This parameter is not like the others, it is applied POST result, see also synonymify and validify, etc.
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# File 'lib/queries/taxon_name/filter.rb', line 84 def ancestrify @ancestrify end |
#author ⇒ Object
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# File 'lib/queries/taxon_name/filter.rb', line 126 def @author end |
#author_exact ⇒ Object
Returns Boolean.
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# File 'lib/queries/taxon_name/filter.rb', line 129 def @author_exact end |
#authors ⇒ Object
- ‘true’ or ‘false’
-
on initialize
whether the name has an author string, from any source, provided
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# File 'lib/queries/taxon_name/filter.rb', line 257 def @authors end |
#collecting_event_id ⇒ Object
Returns Array.
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# File 'lib/queries/taxon_name/filter.rb', line 114 def collecting_event_id @collecting_event_id end |
#collection_object_id ⇒ Object
Returns Array.
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# File 'lib/queries/taxon_name/filter.rb', line 93 def collection_object_id @collection_object_id end |
#combination_taxon_name_id ⇒ Array
Returns taxon_name_ids for which all Combinations will be returned.
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# File 'lib/queries/taxon_name/filter.rb', line 316 def combination_taxon_name_id @combination_taxon_name_id end |
#combinationify ⇒ Object
!! This parameter is not like the others, it is applied POST result, see also synonymify and validify
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# File 'lib/queries/taxon_name/filter.rb', line 106 def combinationify @combinationify end |
#combinations ⇒ Object
This parameter should be used along side species or genus group limits.
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# File 'lib/queries/taxon_name/filter.rb', line 100 def combinations @combinations end |
#descendants ⇒ Boolean
Returns true - only descendants NOT SELF false - self AND descendants nil - ignored Ignored when taxon_name_id[].empty?.
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# File 'lib/queries/taxon_name/filter.rb', line 187 def descendants @descendants end |
#descendants_max_depth ⇒ Integer?
A positive integer indicating how many levels deep of descendants to retrieve.
Ignored when descentants is false/unspecified.
Defaults to nil
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# File 'lib/queries/taxon_name/filter.rb', line 194 def descendants_max_depth @descendants_max_depth end |
#epithet_only ⇒ Object
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# File 'lib/queries/taxon_name/filter.rb', line 89 def epithet_only @epithet_only end |
#etymology ⇒ Object
- ‘true’ or ‘false’
-
on initialize
whether the name has etymology
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# File 'lib/queries/taxon_name/filter.rb', line 252 def etymology @etymology end |
#geo_json ⇒ Object
Returns the value of attribute geo_json.
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# File 'lib/queries/taxon_name/filter.rb', line 325 def geo_json @geo_json end |
#latinized ⇒ Boolean?
Returns &latinized=<“true”|“false”> if ‘true’ then return only genus group names with gender and species
group names with part of speech
if ‘false’ then return only genus group names without gender and
species group names without part of speech
if nil, ignore.
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# File 'lib/queries/taxon_name/filter.rb', line 294 def latinized @latinized end |
#leaves ⇒ Boolean?
TODO: inverse is duplicated in autocomplete
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# File 'lib/queries/taxon_name/filter.rb', line 285 def leaves @leaves end |
#name ⇒ Array
Returns Matches against cached. See also name_exact.
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# File 'lib/queries/taxon_name/filter.rb', line 119 def name @name end |
#name_exact ⇒ Object
Returns Boolean.
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# File 'lib/queries/taxon_name/filter.rb', line 122 def name_exact @name_exact end |
#nomenclature_code ⇒ String?
Returns accessor for attr :nomenclature_code, wrap with needed wildcards.
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# File 'lib/queries/taxon_name/filter.rb', line 278 def nomenclature_code @nomenclature_code end |
#nomenclature_date ⇒ Object
Returns Boolean with/out cached nomenclature date set.
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# File 'lib/queries/taxon_name/filter.rb', line 139 def nomenclature_date @nomenclature_date end |
#nomenclature_group ⇒ String?
Returns accessor for attr :nomenclature_group, wrap with needed wildcards.
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# File 'lib/queries/taxon_name/filter.rb', line 274 def nomenclature_group @nomenclature_group end |
#not_specified ⇒ Object
Returns the value of attribute not_specified.
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# File 'lib/queries/taxon_name/filter.rb', line 269 def not_specified @not_specified end |
#original_combination ⇒ Boolean?
Returns true - name has at least one element of original combination false - name has no element of original combination nil - ignored.
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# File 'lib/queries/taxon_name/filter.rb', line 237 def original_combination @original_combination end |
#otu_id ⇒ Array?
Returns one or more OTU ids.
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# File 'lib/queries/taxon_name/filter.rb', line 242 def otu_id @otu_id end |
#otus ⇒ Object
- ‘true’ or ‘false’
-
on initialize
whether the name has an Otu
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# File 'lib/queries/taxon_name/filter.rb', line 247 def otus @otus end |
#parent_id ⇒ Object
Return the taxon names with this/these parent_ids
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# File 'lib/queries/taxon_name/filter.rb', line 178 def parent_id @parent_id end |
#rank ⇒ Array
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# File 'lib/queries/taxon_name/filter.rb', line 323 def rank @rank end |
#relation_to_relationship ⇒ String?
Returns &relation_to_relationship=<subject|object|either> All names that are subject|object|either of any relationship.
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# File 'lib/queries/taxon_name/filter.rb', line 226 def relation_to_relationship @relation_to_relationship end |
#sort ⇒ String?
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# File 'lib/queries/taxon_name/filter.rb', line 312 def sort @sort end |
#synonymify ⇒ Object
!! This parameter is not like the others, it is applied POST result, see also combinationify and validify
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# File 'lib/queries/taxon_name/filter.rb', line 200 def synonymify @synonymify end |
#taxon_name_author_id ⇒ Array
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# File 'lib/queries/taxon_name/filter.rb', line 301 def @taxon_name_author_id end |
#taxon_name_author_id_or ⇒ Boolean
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# File 'lib/queries/taxon_name/filter.rb', line 307 def @taxon_name_author_id_or end |
#taxon_name_classification ⇒ Object
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# File 'lib/queries/taxon_name/filter.rb', line 230 def taxon_name_classification @taxon_name_classification end |
#taxon_name_id ⇒ Object
Return the taxon name(s) with this/these ids
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# File 'lib/queries/taxon_name/filter.rb', line 172 def taxon_name_id @taxon_name_id end |
#taxon_name_relationship ⇒ Object
Each entry must have a ‘type’ Each entry must have one (and only one) of ‘subject_taxon_name_id’ or ‘object_taxon_name_id’
Return all taxon names in a relationship of a given type and in relation to a another name. For example, return all synonyms of Aus bus.
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# File 'lib/queries/taxon_name/filter.rb', line 208 def taxon_name_relationship @taxon_name_relationship end |
#taxon_name_relationship_target ⇒ Boolean
Applies only to taxon_name_relationship_query_facet, is only present in queries sent from Filter TaxonNameRelationship.
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# File 'lib/queries/taxon_name/filter.rb', line 336 def taxon_name_relationship_target @taxon_name_relationship_target end |
#taxon_name_relationship_type_either ⇒ Object
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# File 'lib/queries/taxon_name/filter.rb', line 221 def taxon_name_relationship_type_either @taxon_name_relationship_type_either end |
#taxon_name_relationship_type_object ⇒ Object
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# File 'lib/queries/taxon_name/filter.rb', line 216 def taxon_name_relationship_type_object @taxon_name_relationship_type_object end |
#taxon_name_relationship_type_subject ⇒ Object
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# File 'lib/queries/taxon_name/filter.rb', line 212 def taxon_name_relationship_type_subject @taxon_name_relationship_type_subject end |
#taxon_name_type ⇒ String?
Returns &taxon_name_type=<Protonym|Combination|Hybrid>.
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# File 'lib/queries/taxon_name/filter.rb', line 298 def taxon_name_type @taxon_name_type end |
#type_metadata ⇒ Object
- ‘true’ or ‘false’
-
on initialize
whether the name has TypeMaterial
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# File 'lib/queries/taxon_name/filter.rb', line 262 def @type_metadata end |
#validify ⇒ Object
name is returned !! This param is not like the others. !!
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# File 'lib/queries/taxon_name/filter.rb', line 161 def validify @validify end |
#validity ⇒ Object
- ‘true’ or ‘false’
-
on initialize
true if only valid, false if only invalid, nil if both
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# File 'lib/queries/taxon_name/filter.rb', line 154 def validity @validity end |
#verbatim_name ⇒ Object
Returns Boolean if true then ‘verbatim_name` is populated.
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# File 'lib/queries/taxon_name/filter.rb', line 166 def verbatim_name @verbatim_name end |
#year ⇒ Object
Matches against cached_author_year.
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# File 'lib/queries/taxon_name/filter.rb', line 134 def year @year end |
#year_end ⇒ Object
Matches against cached_nomenclature_date
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# File 'lib/queries/taxon_name/filter.rb', line 149 def year_end @year_end end |
#year_start ⇒ Object
Matches against cached_nomenclature_date
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# File 'lib/queries/taxon_name/filter.rb', line 144 def year_start @year_start end |
Instance Method Details
#all(nil_empty = false) ⇒ ActiveRecord::Relation
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# File 'lib/queries/taxon_name/filter.rb', line 1090 def all(nil_empty = false) # Everything below subqueries on q in some way, so q can't have paging # enabled. paging_state = disable_paging q = super # Order matters, use this first to go up q = ancestrify_result(q) if ancestrify # Then out in various ways q = validify_result(q) if validify q = combinationify_result(q) if combinationify q = synonimify_result(q) if synonymify # Then sort if sort q = order_clause(q) paging_state[:ordered] = true end q = self.class.set_paging(q, paging_state) q end |
#ancestor_facet ⇒ Object
A merge facet.
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# File 'lib/queries/taxon_name/filter.rb', line 556 def ancestor_facet return nil if taxon_name_id.empty? || !(ancestors == true) ancestors_subquery = ::TaxonNameHierarchy.where( ::TaxonNameHierarchy.arel_table[:ancestor_id].eq(::TaxonName.arel_table[:id]).and( ::TaxonNameHierarchy.arel_table[:descendant_id].in(taxon_name_id) ) ) ::TaxonName.where(ancestors_subquery.arel.exists) end |
#ancestrify_result(q) ⇒ Object
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# File 'lib/queries/taxon_name/filter.rb', line 1059 def ancestrify_result(q) s = ::TaxonName .with(tn_q4: q) .joins('JOIN taxon_name_hierarchies tnh on tnh.ancestor_id = taxon_names.id') .joins('JOIN tn_q4 ON tn_q4.id = tnh.descendant_id') .distinct .to_sql # !! Do not use .distinct here ::TaxonName.from('(' + s + ') as taxon_names') end |
#and_clauses ⇒ ActiveRecord::Relation
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# File 'lib/queries/taxon_name/filter.rb', line 967 def and_clauses [ nomenclature_date_facet, , name_facet, parent_id_facet, rank_facet, taxon_name_type_facet, validity_facet, verbatim_name_facet, with_nomenclature_code, with_nomenclature_group, year_facet, ] end |
#asserted_distribution_query_facet ⇒ Object
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# File 'lib/queries/taxon_name/filter.rb', line 890 def asserted_distribution_query_facet return nil if asserted_distribution_query.nil? s = 'WITH query_ad_tn AS (' + asserted_distribution_query.all.to_sql + ') ' + ::TaxonName .joins(otus: [:asserted_distributions]) .joins('JOIN query_ad_tn as query_ad_tn1 on query_ad_tn1.otu_id = asserted_distributions.otu_id') .to_sql ::TaxonName.from('(' + s + ') as taxon_names').distinct end |
#author_facet ⇒ Object
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# File 'lib/queries/taxon_name/filter.rb', line 810 def return nil if .blank? if table[:cached_author_year].eq(.strip) else table[:cached_author_year].matches('%' + .strip.gsub(/\s/, '%') + '%') end end |
#authors_facet ⇒ Object
This is not true! It includes records that are year only.
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# File 'lib/queries/taxon_name/filter.rb', line 586 def return nil if .nil? ? ::TaxonName.where.not(cached_author_year: nil) : ::TaxonName.where(cached_author_year: nil) end |
#biological_association_query_facet ⇒ Object
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# File 'lib/queries/taxon_name/filter.rb', line 923 def biological_association_query_facet return nil if biological_association_query.nil? s = 'WITH query_tn_ba AS (' + biological_association_query.all.to_sql + ') ' a = ::TaxonName .joins(:otus) .joins("JOIN query_tn_ba as query_tn_ba1 on query_tn_ba1.biological_association_subject_id = otus.id AND query_tn_ba1.biological_association_subject_type = 'Otu'").to_sql b = ::TaxonName .joins(:otus) .joins("JOIN query_tn_ba as query_tn_ba2 on query_tn_ba2.biological_association_object_id = otus.id AND query_tn_ba2.biological_association_object_type = 'Otu'").to_sql s << ::TaxonName.from("((#{a}) UNION (#{b})) as taxon_names").to_sql ::TaxonName.from('(' + s + ') as taxon_names') end |
#collecting_event_id_facet ⇒ Object
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# File 'lib/queries/taxon_name/filter.rb', line 862 def collecting_event_id_facet return nil if collecting_event_id.empty? ::TaxonName .joins(:collection_objects) .where(collection_objects: { collecting_event_id: }) end |
#collecting_event_query_facet ⇒ Object
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# File 'lib/queries/taxon_name/filter.rb', line 912 def collecting_event_query_facet return nil if collecting_event_query.nil? s = 'WITH query_ce_tns AS (' + collecting_event_query.all.to_sql + ') ' + ::TaxonName .joins(:collection_objects) .joins('JOIN query_ce_tns as query_ce_tns1 on collection_objects.collecting_event_id = query_ce_tns1.id') .to_sql ::TaxonName.from('(' + s + ') as taxon_names').distinct end |
#collection_object_id_facet ⇒ Object
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# File 'lib/queries/taxon_name/filter.rb', line 568 def collection_object_id_facet return nil if collection_object_id.empty? ::TaxonName.joins(:collection_objects).where(collection_objects: { id: collection_object_id }) end |
#collection_object_query_facet ⇒ Object
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# File 'lib/queries/taxon_name/filter.rb', line 901 def collection_object_query_facet return nil if collection_object_query.nil? s = 'WITH query_collection_objects AS (' + collection_object_query.all.to_sql + ') ' + ::TaxonName .joins(:collection_objects) .joins('JOIN query_collection_objects as query_collection_objects1 on collection_objects.id = query_collection_objects1.id') .to_sql ::TaxonName.from('(' + s + ') as taxon_names').distinct end |
#combination_taxon_name_id_facet ⇒ Object
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# File 'lib/queries/taxon_name/filter.rb', line 851 def combination_taxon_name_id_facet return nil if combination_taxon_name_id.empty? ::Combination.joins(:related_taxon_name_relationships) .where( taxon_name_relationships: { type: ::TAXON_NAME_RELATIONSHIP_COMBINATION_TYPES.values, subject_taxon_name_id: combination_taxon_name_id, }, ).distinct end |
#combinationify_result(q) ⇒ Object
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# File 'lib/queries/taxon_name/filter.rb', line 1047 def combinationify_result(q) s = ::TaxonName .with(tn_q3: q) .joins('JOIN tn_q3 ON tn_q3.id = taxon_names.cached_valid_taxon_name_id') .where("taxon_names.type = 'Combination'") .to_sql a = ::TaxonName.from('(' + s + ') as taxon_names').distinct referenced_klass_union([q, a]) end |
#combinations_facet ⇒ Object
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# File 'lib/queries/taxon_name/filter.rb', line 869 def combinations_facet return nil if combinations.nil? a = ::Protonym.joins(:combination_relationships) if combinations a else referenced_klass_except(a) end end |
#descendant_facet ⇒ Object
Returns Scope match only names that are a descendant of some taxon_name_id.
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# File 'lib/queries/taxon_name/filter.rb', line 526 def descendant_facet return nil if taxon_name_id.empty? || descendants.nil? h = ::TaxonNameHierarchy.arel_table if descendants descendants_subquery = ::TaxonNameHierarchy.where( h[:descendant_id].eq(::TaxonName.arel_table[:id]).and( h[:ancestor_id].in(taxon_name_id) ) ).where(h[:ancestor_id].not_eq(h[:descendant_id])) if descendants_max_depth.present? descendants_subquery = descendants_subquery.where(::TaxonNameHierarchy.arel_table[:generations].lteq(descendants_max_depth.to_i)) end ::TaxonName.where(descendants_subquery.arel.exists) else q = ::TaxonName.joins('JOIN taxon_name_hierarchies ON taxon_name_hierarchies.descendant_id = taxon_names.id') .where(taxon_name_hierarchies: {ancestor_id: taxon_name_id}) if descendants_max_depth.present? q = q.where(::TaxonNameHierarchy.arel_table[:generations].lteq(descendants_max_depth.to_i)) end q end end |
#geo_json_facet ⇒ Object
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# File 'lib/queries/taxon_name/filter.rb', line 482 def geo_json_facet return nil if geo_json.nil? otus = ::Queries::Otu::Filter.new(geo_json:).all collection_objects = ::Queries::CollectionObject::Filter.new(geo_json:).all a = ::TaxonName.joins(:taxon_taxon_determinations).where(taxon_determinations: { taxon_determination_object: collection_objects }) b = ::TaxonName.joins(:otus).where(otus:) ::TaxonName.from("((#{a.to_sql}) UNION (#{b.to_sql})) as taxon_names") end |
#latinized_facet ⇒ Object
Returns Scope.
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# File 'lib/queries/taxon_name/filter.rb', line 641 def latinized_facet return nil if latinized.nil? tnc = ::TaxonNameClassification.arel_table if latinized == true # Note the query here does not restrict to genus/species groups - a # genus whose rank is changed to subfamily can retain its gender, # e.g., and we want to include those here. ::TaxonName.where( ::TaxonNameClassification.where( tnc[:taxon_name_id].eq(table[:id]).and( tnc[:type].in(LATINIZED_TAXON_NAME_CLASSIFICATION_NAMES) ) ).arel.exists ) else ::TaxonName .where( table[:rank_class].in(GENUS_AND_SPECIES_RANK_NAMES) ) .where.not( ::TaxonNameClassification.where( tnc[:taxon_name_id].eq(table[:id]).and( tnc[:type].in(LATINIZED_TAXON_NAME_CLASSIFICATION_NAMES) ) ).arel.exists ) end end |
#leaves_facet ⇒ Object
Returns Scope.
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# File 'lib/queries/taxon_name/filter.rb', line 635 def leaves_facet return nil if leaves.nil? leaves ? ::TaxonName.leaves : ::TaxonName.not_leaves end |
#merge_clauses ⇒ Object
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# File 'lib/queries/taxon_name/filter.rb', line 983 def merge_clauses clauses = [ asserted_distribution_query_facet, biological_association_query_facet, collecting_event_query_facet, collection_object_query_facet, otu_query_facet, taxon_name_relationship_query_facet, ancestor_facet, , collecting_event_id_facet, collection_object_id_facet, combination_taxon_name_id_facet, combinations_facet, descendant_facet, latinized_facet, leaves_facet, not_specified_facet, original_combination_facet, otu_id_facet, otus_facet, relation_to_relationship_facet, , taxon_name_classification_facet, taxon_name_relationship_type_facet, , with_etymology_facet, year_range_facet, ] taxon_name_relationship.each do |hsh| clauses << taxon_name_relationship_facet(hsh) end clauses.compact end |
#model_id_facet ⇒ Object
Overrides base class
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# File 'lib/queries/taxon_name/filter.rb', line 1022 def model_id_facet return nil if taxon_name_id.empty? || !descendants.nil? || ancestors table[:id].in(taxon_name_id) end |
#name_facet ⇒ Object
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# File 'lib/queries/taxon_name/filter.rb', line 787 def name_facet return nil if name.empty? if name_exact if (epithet_only) table[:name].in(name) else table[:cached].in(name).or(table[:cached_original_combination].in(name)) end # table[:cached].eq(name.strip).or(table[:cached_original_combination].eq(name.strip)) else if (epithet_only) table[:name].matches_any(name.collect { |n| '%' + n.gsub(/\s+/, '%') + '%' }) else table[:cached].matches_any(name.collect { |n| '%' + n.gsub(/\s+/, '%') + '%' }).or(table[:cached_original_combination].matches_any(name.collect { |n| '%' + n.gsub(/\s+/, '%') + '%' })) end end end |
#nomenclature_date_facet ⇒ Object
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# File 'lib/queries/taxon_name/filter.rb', line 515 def nomenclature_date_facet return nil if nomenclature_date.nil? if nomenclature_date table[:cached_nomenclature_date].not_eq(nil) else table[:cached_nomenclature_date].eq(nil) end end |
#not_specified_facet ⇒ Object
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# File 'lib/queries/taxon_name/filter.rb', line 493 def not_specified_facet return nil if not_specified.nil? if not_specified ::TaxonName.where(table[:cached].matches('%NOT SPECIFIED%').or( table[:cached_original_combination].matches('%NOT SPECIFIED%') )) else ::TaxonName.where(table[:cached].does_not_match('%NOT SPECIFIED%').and( table[:cached_original_combination].does_not_match('%NOT SPECIFIED%') )) end end |
#order_clause(query) ⇒ Object
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# File 'lib/queries/taxon_name/filter.rb', line 1071 def order_clause(query) case sort when 'alphabetical' ::TaxonName.select('*').from( query.order('taxon_names.cached'), :inner_query ) when 'classification' ::TaxonName.select('*').from( query .joins('INNER JOIN taxon_name_hierarchies ON taxon_names.id = taxon_name_hierarchies.descendant_id') .order('taxon_name_hierarchies.generations, taxon_name_hierarchies.ancestor_id, taxon_names.cached'), :inner_query ) else query end end |
#original_combination_facet ⇒ Object
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# File 'lib/queries/taxon_name/filter.rb', line 506 def original_combination_facet return nil if original_combination.nil? if original_combination ::Protonym.joins(:original_combination_relationships).distinct else ::Protonym.left_joins(:original_combination_relationships).where(taxon_name_relationships: {id: nil}) end end |
#otu_id_facet ⇒ Object
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# File 'lib/queries/taxon_name/filter.rb', line 573 def otu_id_facet return nil if otu_id.empty? ::TaxonName.joins(:otus).where(otus: { id: otu_id }) end |
#otu_query_facet ⇒ Object
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# File 'lib/queries/taxon_name/filter.rb', line 879 def otu_query_facet return nil if otu_query.nil? s = 'WITH query_otu_tn AS (' + otu_query.all.to_sql + ') ' + ::TaxonName .joins(:otus) .joins('JOIN query_otu_tn as query_otu_tn1 on otus.id = query_otu_tn1.id') # Don't change, see `validify` .to_sql ::TaxonName.from('(' + s + ') as taxon_names').distinct end |
#otus_facet ⇒ Object
Returns Scope.
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# File 'lib/queries/taxon_name/filter.rb', line 756 def otus_facet return nil if otus.nil? subquery = ::Otu.where(::Otu.arel_table[:taxon_name_id].eq(::TaxonName.arel_table[:id])).arel.exists ::TaxonName.where(otus ? subquery : subquery.not) end |
#parent_id_facet ⇒ Object
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# File 'lib/queries/taxon_name/filter.rb', line 805 def parent_id_facet return nil if parent_id.empty? table[:parent_id].in(parent_id) end |
#rank_facet ⇒ Arel::Nodes::Grouping?
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# File 'lib/queries/taxon_name/filter.rb', line 769 def rank_facet return nil if rank.blank? # We don't wildcard end so that we can isolate to specific ranks and below r = rank.collect { |i| "%#{i}" } table[:rank_class].matches_any(r) end |
#relation_to_relationship_facet ⇒ Object
Returns Scope.
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# File 'lib/queries/taxon_name/filter.rb', line 690 def relation_to_relationship_facet return nil if relation_to_relationship.nil? if relation_to_relationship == 'subject' ::TaxonName.with_taxon_name_relationships_as_subject.distinct elsif relation_to_relationship == 'object' ::TaxonName.with_taxon_name_relationships_as_object.distinct else # 3-4x more time-performant than using # :with_taxon_name_relationships.distinct ::TaxonName.joins('join taxon_name_relationships ON ' \ 'taxon_names.id = taxon_name_relationships.subject_taxon_name_id OR ' \ 'taxon_names.id = taxon_name_relationships.object_taxon_name_id' ).distinct end end |
#synonimify_result(q) ⇒ Object
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# File 'lib/queries/taxon_name/filter.rb', line 1036 def synonimify_result(q) s = ::TaxonName .with(tn_q2: q) .joins('JOIN tn_q2 ON tn_q2.id = taxon_names.cached_valid_taxon_name_id') .to_sql a = ::TaxonName.from('(' + s + ') as taxon_names').distinct referenced_klass_union([q, a]) end |
#taxon_name_author_id_facet ⇒ Object
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# File 'lib/queries/taxon_name/filter.rb', line 720 def return nil if .empty? o = table r = ::Role.arel_table a = o.alias('a_') b = o.project(a[Arel.star]).from(a) c = r.alias('r1') b = b.join(c, Arel::Nodes::OuterJoin) .on( a[:id].eq(c[:role_object_id]) .and(c[:role_object_type].eq('TaxonName')) .and(c[:type].eq('TaxonNameAuthor')) ) e = c[:id].not_eq(nil) f = c[:person_id].in() b = b.where(e.and(f)) b = b.group(a['id']) b = b.having(a['id'].count.eq(.length)) unless b = b.as('tn_z1_') ::TaxonName.joins(Arel::Nodes::InnerJoin.new(b, Arel::Nodes::On.new(b['id'].eq(o['id'])))) end |
#taxon_name_classification_facet ⇒ Object
Returns Scope.
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# File 'lib/queries/taxon_name/filter.rb', line 708 def taxon_name_classification_facet return nil if taxon_name_classification.empty? ::TaxonName.where( ::TaxonNameClassification.where( ::TaxonNameClassification.arel_table[:taxon_name_id].eq(::TaxonName.arel_table[:id]).and( ::TaxonNameClassification.arel_table[:type].in(taxon_name_classification) ) ).arel.exists ) end |
#taxon_name_relationship_facet(hsh) ⇒ Object
Returns Scope wrapped in descendant_facet!.
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# File 'lib/queries/taxon_name/filter.rb', line 673 def taxon_name_relationship_facet(hsh) hsh = hsh.symbolize_keys param_key = hsh[:subject_taxon_name_id] ? :subject_taxon_name_id : :object_taxon_name_id join_key = hsh[:subject_taxon_name_id] ? :object_taxon_name_id : :subject_taxon_name_id ::TaxonName.where( ::TaxonNameRelationship.where( ::TaxonNameRelationship.arel_table[join_key].eq(::TaxonName.arel_table[:id]).and( ::TaxonNameRelationship.arel_table[param_key].eq(hsh[param_key]) ).and( ::TaxonNameRelationship.arel_table[:type].eq(hsh[:type]) ) ).arel.exists ) end |
#taxon_name_relationship_query_facet ⇒ Object
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# File 'lib/queries/taxon_name/filter.rb', line 940 def taxon_name_relationship_query_facet return nil if taxon_name_relationship_query.nil? a = nil b = nil if taxon_name_relationship_target == 'subject' || taxon_name_relationship_target.nil? a = ::TaxonName .with(tnr_query: taxon_name_relationship_query.all) .joins(:taxon_name_relationships) .where('taxon_name_relationships.id IN (SELECT id FROM tnr_query)') .distinct end if taxon_name_relationship_target == 'object' || taxon_name_relationship_target.nil? b = ::TaxonName .with(tnr_query: taxon_name_relationship_query.all) .joins(:related_taxon_name_relationships) .where('taxon_name_relationships.id IN (SELECT id FROM tnr_query)') .distinct end referenced_klass_union([a,b]) end |
#taxon_name_relationship_type_facet ⇒ Object
Returns Scope.
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# File 'lib/queries/taxon_name/filter.rb', line 602 def taxon_name_relationship_type_facet if taxon_name_relationship_type_subject.empty? && taxon_name_relationship_type_object.empty? && taxon_name_relationship_type_either.empty? return nil end s = nil o = nil e = nil if taxon_name_relationship_type_subject.present? s = ::TaxonName.as_subject_with_taxon_name_relationship( taxon_name_relationship_type_subject ).distinct end if taxon_name_relationship_type_object.present? o = ::TaxonName.as_object_with_taxon_name_relationship( taxon_name_relationship_type_object ).distinct end if taxon_name_relationship_type_either.present? e = ::TaxonName.with_taxon_name_relationship( taxon_name_relationship_type_either ) end referenced_klass_union([s, o, e]) end |
#taxon_name_type_facet ⇒ Object
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# File 'lib/queries/taxon_name/filter.rb', line 782 def taxon_name_type_facet return nil if taxon_name_type.blank? table[:type].eq(taxon_name_type) end |
#type_metadata_facet ⇒ Object
Returns Scope.
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# File 'lib/queries/taxon_name/filter.rb', line 749 def return nil if .nil? subquery = ::TypeMaterial.where(::TypeMaterial.arel_table[:protonym_id].eq(::TaxonName.arel_table[:id])).arel.exists ::TaxonName.where( ? subquery : subquery.not) end |
#validify_result(q) ⇒ Object
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# File 'lib/queries/taxon_name/filter.rb', line 1027 def validify_result(q) s = ::TaxonName .with(tn_q1: q) .joins('JOIN tn_q1 ON tn_q1.cached_valid_taxon_name_id = taxon_names.id') .to_sql ::TaxonName.from('(' + s + ') as taxon_names').distinct end |
#validity_facet ⇒ Object
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# File 'lib/queries/taxon_name/filter.rb', line 833 def validity_facet return nil if validity.nil? if validity table[:cached_is_valid].eq(true) else table[:cached_is_valid].eq(false) end end |
#verbatim_name_facet ⇒ Object
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# File 'lib/queries/taxon_name/filter.rb', line 842 def verbatim_name_facet return nil if verbatim_name.nil? if verbatim_name table[:verbatim_name].not_eq(nil) else table[:verbatim_name].eq(nil) end end |
#with_etymology_facet ⇒ Object
Returns Scope.
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# File 'lib/queries/taxon_name/filter.rb', line 594 def with_etymology_facet return nil if etymology.nil? etymology ? ::TaxonName.where.not(etymology: nil) : ::TaxonName.where(etymology: nil) end |
#with_nomenclature_code ⇒ Arel::Nodes::Grouping?
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# File 'lib/queries/taxon_name/filter.rb', line 777 def with_nomenclature_code return nil if nomenclature_code.nil? table[:rank_class].matches(nomenclature_code) end |
#with_nomenclature_group ⇒ Arel::Nodes::Grouping?
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# File 'lib/queries/taxon_name/filter.rb', line 763 def with_nomenclature_group return nil if nomenclature_group.blank? table[:rank_class].matches(nomenclature_group) end |
#year_facet ⇒ Object
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# File 'lib/queries/taxon_name/filter.rb', line 819 def year_facet return nil if year.blank? s = Date.new(@year.to_i) e = Date.new(@year.to_i, 12, 31) table[:cached_nomenclature_date].between(s..e) end |
#year_range_facet ⇒ Object
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# File 'lib/queries/taxon_name/filter.rb', line 827 def year_range_facet return nil if year_end.nil? && year_start.nil? s, e = [year_start, year_end].compact ::TaxonName.where(cached_nomenclature_date: (s..e)) end |