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, :leaves, :name, :name_exact, :nomenclature_code, :nomenclature_date, :nomenclature_group, # !! different than autocomplete :not_specified, :original_combination, :otu_id, :otus, :rank, :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: [], 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.
-
#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
- #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_type ⇒ 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, #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, #taxon_name_query, #venn, #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.
-
#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?
- #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_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, included_annotator_facets, instantiated_base_filter, inverted_subqueries, #object_global_id_facet, #only_project?, params, #permitted_params, #process_url_into_params, #project_id_facet, query_name, #query_name, #set_nested_queries, #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 300 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] @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] @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_type = params[:taxon_name_relationship_type] || [] @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 72 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 78 def ancestrify @ancestrify end |
#author ⇒ Object
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# File 'lib/queries/taxon_name/filter.rb', line 120 def @author end |
#author_exact ⇒ Object
Returns Boolean.
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# File 'lib/queries/taxon_name/filter.rb', line 123 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 237 def @authors end |
#collecting_event_id ⇒ Object
Returns Array.
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# File 'lib/queries/taxon_name/filter.rb', line 108 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 87 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 287 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 100 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 94 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 181 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 188 def descendants_max_depth @descendants_max_depth end |
#epithet_only ⇒ Object
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# File 'lib/queries/taxon_name/filter.rb', line 83 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 232 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 296 def geo_json @geo_json end |
#leaves ⇒ Boolean?
TODO: inverse is duplicated in autocomplete
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# File 'lib/queries/taxon_name/filter.rb', line 265 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 113 def name @name end |
#name_exact ⇒ Object
Returns Boolean.
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# File 'lib/queries/taxon_name/filter.rb', line 116 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 258 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 133 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 254 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 249 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 217 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 222 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 227 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 172 def parent_id @parent_id end |
#rank ⇒ Array
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# File 'lib/queries/taxon_name/filter.rb', line 294 def rank @rank end |
#sort ⇒ String?
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# File 'lib/queries/taxon_name/filter.rb', line 283 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 194 def synonymify @synonymify end |
#taxon_name_author_id ⇒ Array
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# File 'lib/queries/taxon_name/filter.rb', line 272 def @taxon_name_author_id end |
#taxon_name_author_id_or ⇒ Boolean
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# File 'lib/queries/taxon_name/filter.rb', line 278 def @taxon_name_author_id_or end |
#taxon_name_classification ⇒ Object
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# File 'lib/queries/taxon_name/filter.rb', line 210 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 166 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 202 def taxon_name_relationship @taxon_name_relationship end |
#taxon_name_relationship_type ⇒ Object
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# File 'lib/queries/taxon_name/filter.rb', line 206 def taxon_name_relationship_type @taxon_name_relationship_type end |
#taxon_name_type ⇒ String?
Returns &taxon_name_type=<Protonym|Combination|Hybrid>.
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# File 'lib/queries/taxon_name/filter.rb', line 269 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 242 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 155 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 148 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 160 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 128 def year @year end |
#year_end ⇒ Object
Matches against cached_nomenclature_date
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# File 'lib/queries/taxon_name/filter.rb', line 143 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 138 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 936 def all(nil_empty = false) 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 q = order_clause(q) if sort q end |
#ancestor_facet ⇒ Object
A merge facet.
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# File 'lib/queries/taxon_name/filter.rb', line 508 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 905 def ancestrify_result(q) s = 'WITH tn_result_query_anc AS (' + q.to_sql + ') ' + ::TaxonName .joins('JOIN taxon_name_hierarchies tnh on tnh.ancestor_id = taxon_names.id') .joins('JOIN tn_result_query_anc as tn_result_query_anc1 on tn_result_query_anc1.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 816 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 765 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 685 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 538 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 798 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 737 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 787 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 520 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 776 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 726 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 893 def combinationify_result(q) s = 'WITH tn_result_query AS (' + q.to_sql + ') ' + ::TaxonName .joins('JOIN tn_result_query as tn_result_query3 on tn_result_query3.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 744 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 478 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 434 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 |
#leaves_facet ⇒ Object
Returns Scope.
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# File 'lib/queries/taxon_name/filter.rb', line 560 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 832 def merge_clauses clauses = [ asserted_distribution_query_facet, biological_association_query_facet, collecting_event_query_facet, collection_object_query_facet, otu_query_facet, ancestor_facet, , collecting_event_id_facet, collection_object_id_facet, combination_taxon_name_id_facet, combinations_facet, descendant_facet, leaves_facet, not_specified_facet, original_combination_facet, otu_id_facet, , otus_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 868 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 662 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 467 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 445 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 917 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 458 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 525 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 754 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 631 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 680 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 644 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 |
#synonimify_result(q) ⇒ Object
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# File 'lib/queries/taxon_name/filter.rb', line 882 def synonimify_result(q) s = 'WITH tn_result_query AS (' + q.to_sql + ') ' + ::TaxonName .joins('JOIN tn_result_query as tn_result_query2 on tn_result_query2.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 595 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 583 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 567 def taxon_name_relationship_facet(hsh) 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_type_facet ⇒ Object
Returns Scope.
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# File 'lib/queries/taxon_name/filter.rb', line 554 def taxon_name_relationship_type_facet return nil if taxon_name_relationship_type.empty? ::TaxonName.with_taxon_name_relationship(taxon_name_relationship_type) end |
#taxon_name_type_facet ⇒ Object
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# File 'lib/queries/taxon_name/filter.rb', line 657 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 624 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 873 def validify_result(q) s = 'WITH tn_result_query AS (' + q.to_sql + ') ' + ::TaxonName .joins('JOIN tn_result_query as tn_result_query1 on tn_result_query1.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 708 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 717 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 546 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 652 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 638 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 694 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 702 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 |