Class: Queries::CollectionObject::Filter
- Inherits:
-
Query::Filter
show all
- Includes:
- Queries::Concerns::Citations, Queries::Concerns::Containable, Queries::Concerns::DataAttributes, Queries::Concerns::Depictions, Queries::Concerns::Notes, Queries::Concerns::Protocols, Queries::Concerns::Tags, Helpers
- Defined in:
- lib/queries/collection_object/filter.rb
Constant Summary
collapse
- PARAMS =
[
*::Queries::CollectingEvent::Filter::BASE_PARAMS,
*Queries::Concerns::DateRanges.params,
:biological_association_id,
:biological_associations,
:biological_relationship_id,
:buffered_collecting_event,
:buffered_determinations,
:buffered_other_labels,
:collecting_event,
:collection_object_id,
:collection_object_type,
:collectors,
:current_determinations,
:current_repository,
:current_repository_id,
:dates,
:deaccessioned,
:descendants,
:determiner_id_or,
:determiner_id,
:determiner_name_regex,
:determiners,
:dwc_indexed,
:exact_buffered_collecting_event,
:exact_buffered_determinations,
:exact_buffered_other_labels,
:extract_id,
:georeferences,
:import_dataset_id,
:loaned,
:never_loaned,
:on_loan,
:preparation_type,
:preparation_type_id,
:repository,
:repository_id,
:sled_image_id,
:spatial_geographic_areas,
:taxon_determination_id,
:taxon_determinations,
:taxon_name_id,
:type_material,
:type_specimen_taxon_name_id,
:validity,
:with_buffered_collecting_event,
:with_buffered_determinations,
:with_buffered_other_labels,
biocuration_class_id: [],
biological_association_id: [],
biological_relationship_id: [],
collecting_event_id: [],
collection_object_id: [],
determiner_id: [],
extract_id: [],
geographic_area_id: [],
import_dataset_id: [],
is_type: [],
loan_id: [],
otu_id: [],
preparation_type_id: [],
taxon_name_id: [],
].inject([{}]) { |ary, k| k.is_a?(Hash) ? ary.last.merge!(k) : ary.unshift(k); ary }.freeze
Query::Filter::FILTER_QUERIES, Query::Filter::SUBQUERIES
Instance Attribute Summary collapse
-
#base_collecting_event_query ⇒ Object
All params managed by CollectingEvent filter are available here as well.
-
#biocuration_class_id ⇒ Array
Of biocuration_class ids.
-
#biological_association_id ⇒ Object
Array Matching records in this BiologicalAssociation.
-
#biological_associations ⇒ True, ...
True - has collecting event that has geographic_area false - does not have collecting event that has geographic area nil - not applied.
-
#biological_relationship_id ⇒ Array
Of biological_relationship#id.
-
#buffered_collecting_event ⇒ String?
-
#buffered_determinations ⇒ String?
-
#buffered_other_labels ⇒ String?
-
#collecting_event ⇒ True, ...
-
#collecting_event_id ⇒ Object
- Array
-
only return objects with these collecting event ID.
-
#collection_object_id ⇒ Object
-
#collection_object_type ⇒ Object
-
#collectors ⇒ Boolean?
True - A collector role exists false - A collector role exists nil - not applied.
-
#current_determinations ⇒ Boolean?
Nil = TaxonDeterminations match regardless of current or historical true = TaxonDetermination must be .current false = TaxonDetermination must be .historical.
-
#current_repository ⇒ True, ...
True - has current_repository_id false - does not have current_repository_id nil - not applied.
-
#current_repository_id ⇒ CurrentRepository#id?
-
#dates ⇒ Object
Boolean true - any of start/end date or verbatim date are populated false - none of start/end date or verbatim date are populated nil - ignored.
-
#deaccessioned ⇒ Boolean?
Nil = Ignored true = CollectionObject with deaccessioned_at OR deaccessioned_reason populated or deaccession_recipient.present? false = without true.
-
#descendants ⇒ Object
Returns the value of attribute descendants.
-
#determiner_id ⇒ Array
-
#determiner_id_or ⇒ Boolean
-
#determiner_name_regex ⇒ Object
A PostgreSQL valid regular expression.
-
#determiners ⇒ Boolean?
True - A determiner role exists false - No determiner role exists nil - not applied.
-
#dwc_indexed ⇒ True, ...
True - index is built false - index is not built nil - not applied.
-
#exact_buffered_collecting_event ⇒ Boolean?
-
#exact_buffered_determinations ⇒ Boolean?
-
#exact_buffered_other_labels ⇒ Boolean?
-
#extract_id ⇒ Object
Array match all CollectionObjects that are the origin of these Extracts.
-
#geographic_area ⇒ True, ...
True - has collecting event that has geographic_area false - does not have collecting event that has geographic area nil - not applied.
-
#georeferences ⇒ True, ...
True - has one ore more georeferences false - does not have any georeferences nil - not applied.
-
#import_dataset_id ⇒ Array
-
#is_type ⇒ Array?
One of ‘holotype`, `lectotype` etc.
-
#loan_id ⇒ Array
A list of loan#id, all collection objects inside them will be included.
-
#loaned ⇒ Object
-
#never_loaned ⇒ Object
-
#on_loan ⇒ Object
-
#otu_id ⇒ Array?
Otu ids, matches on the TaxonDetermination, see also current_determinations.
-
#preparation_type ⇒ True, ...
True - has preparation_type false - does not have preparation_type nil - not applied.
-
#preparation_type_id ⇒ Array
-
#repository ⇒ True, ...
True - has repository_id false - does not have repository_id nil - not applied.
-
#repository_id ⇒ Repository#id?
-
#sled_image_id ⇒ SledImage#id?
-
#taxon_determinations ⇒ True, ...
True - has one ore more taxon_determinations false - does not have any taxon_determinations nil - not applied.
-
#taxon_name ⇒ True, ...
True - Otu has taxon name false - Otu without taxon name nil - not applied.
-
#taxon_name_id ⇒ Array of Protonym.id?
Return all collection objects determined as an Otu that is self or descendant linked to this TaxonName.
-
#type_material ⇒ True, ...
True - has collecting event that has geographic_area false - does not have collecting event that has geographic area nil - not applied.
-
#type_specimen_taxon_name_id ⇒ Protonym#id?
-
#validity ⇒ Boolean?
Nil = Match against all ancestors, valid or invalid true = Match against only valid ancestors false = Match against only invalid ancestors.
-
#with_buffered_collecting_event ⇒ Object
See with_buffered_determinations.
-
#with_buffered_determinations ⇒ Boolean?
-
#with_buffered_other_labels ⇒ Object
See with_buffered_determinations.
#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, #descriptor_query, #extract_query, #field_occurrence_query, #image_query, #loan_query, #object_global_id, #observation_query, #otu_query, #page, #paginate, #params, #per, #person_query, #project_id, #recent, #taxon_name_query, #venn, #venn_mode
Attributes inherited from Query
#query_string, #terms
Instance Method Summary
collapse
Methods included from Helpers
#boolean_param
#all, #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, #deep_permit, included_annotator_facets, inverted_subqueries, #model_id_facet, #object_global_id_facet, params, #permitted_params, #process_url_into_params, #project_id_facet, query_name, #query_name, #set_nested_queries, #shared_and_clauses, #subquery_vector, #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
rubocop:disable Metric/MethodLength
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# File 'lib/queries/collection_object/filter.rb', line 317
def initialize(query_params)
super
collecting_event_params = ::Queries::CollectingEvent::Filter.base_params + Queries::Concerns::DateRanges.params
@base_collecting_event_query = ::Queries::CollectingEvent::Filter.new(
params.select{ |a, b| collecting_event_params.include?(a) } )
@biological_association_id = params[:biological_association_id]
@biocuration_class_id = params[:biocuration_class_id]
@biological_relationship_id = params[:biological_relationship_id] @buffered_collecting_event = params[:buffered_collecting_event]
@buffered_determinations = params[:buffered_determinations]
@buffered_other_labels = params[:buffered_other_labels]
@biological_associations = boolean_param(params, :biological_associations)
@collecting_event = boolean_param(params, :collecting_event)
@collectors = boolean_param(params, :collectors)
@collecting_event_id = params[:collecting_event_id]
@collection_object_id = params[:collection_object_id]
@collection_object_type = params[:collection_object_type].presence
@current_determinations = boolean_param(params, :current_determinations)
@current_repository = boolean_param(params, :current_repository)
@current_repository_id = params[:current_repository_id].presence
@dates = boolean_param(params, :dates)
@descendants = boolean_param(params, :descendants)
@deaccessioned = boolean_param(params, :deaccessioned)
@determiners = boolean_param(params, :determiners)
@determiner_id = params[:determiner_id]
@determiner_id_or = boolean_param(params, :determiner_id_or)
@determiner_name_regex = params[:determiner_name_regex]
@dwc_indexed = boolean_param(params, :dwc_indexed)
@exact_buffered_collecting_event = boolean_param(params, :exact_buffered_collecting_event)
@exact_buffered_determinations = boolean_param(params, :exact_buffered_determinations)
@exact_buffered_other_labels = boolean_param(params, :exact_buffered_other_labels)
@extract_id = params[:extract_id]
@geographic_area = boolean_param(params, :geographic_area)
@georeferences = boolean_param(params, :georeferences)
@import_dataset_id = params[:import_dataset_id]
@is_type = params[:is_type] || []
@loan_id = params[:loan_id]
@loaned = boolean_param(params, :loaned)
@never_loaned = boolean_param(params, :never_loaned)
@on_loan = boolean_param(params, :on_loan)
@otu_descendants = boolean_param(params, :otu_descendants)
@otu_id = params[:otu_id]
@preparation_type = boolean_param(params, :preparation_type)
@preparation_type_id = params[:preparation_type_id]
@repository = boolean_param(params, :repository)
@repository_id = params[:repository_id]
@sled_image_id = (params[:sled_image_id].presence)
@taxon_determinations = boolean_param(params, :taxon_determinations)
@taxon_name_id = params[:taxon_name_id]
@type_material = boolean_param(params, :type_material)
@type_specimen_taxon_name_id = (params[:type_specimen_taxon_name_id].presence)
@validity = boolean_param(params, :validity)
@with_buffered_collecting_event = boolean_param(params, :with_buffered_collecting_event)
@with_buffered_determinations = boolean_param(params, :with_buffered_determinations)
@with_buffered_other_labels = boolean_param(params, :with_buffered_other_labels)
set_citations_params(params)
set_containable_params(params)
set_data_attributes_params(params)
set_depiction_params(params)
set_notes_params(params)
set_protocols_params(params)
set_tags_params(params)
end
|
Instance Attribute Details
#base_collecting_event_query ⇒ Object
All params managed by CollectingEvent filter are available here as well
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# File 'lib/queries/collection_object/filter.rb', line 108
def base_collecting_event_query
@base_collecting_event_query
end
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#biocuration_class_id ⇒ Array
Returns of biocuration_class ids.
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# File 'lib/queries/collection_object/filter.rb', line 170
def biocuration_class_id
@biocuration_class_id
end
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#biological_association_id ⇒ Object
Returns Array Matching records in this BiologicalAssociation.
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# File 'lib/queries/collection_object/filter.rb', line 93
def biological_association_id
@biological_association_id
end
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#biological_associations ⇒ True, ...
Returns true - has collecting event that has geographic_area false - does not have collecting event that has geographic area nil - not applied.
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# File 'lib/queries/collection_object/filter.rb', line 89
def biological_associations
@biological_associations
end
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#biological_relationship_id ⇒ Array
Returns of biological_relationship#id.
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# File 'lib/queries/collection_object/filter.rb', line 174
def biological_relationship_id
@biological_relationship_id
end
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#buffered_collecting_event ⇒ String?
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# File 'lib/queries/collection_object/filter.rb', line 271
def buffered_collecting_event
@buffered_collecting_event
end
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#buffered_determinations ⇒ String?
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# File 'lib/queries/collection_object/filter.rb', line 263
def buffered_determinations
@buffered_determinations
end
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#buffered_other_labels ⇒ String?
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# File 'lib/queries/collection_object/filter.rb', line 280
def buffered_other_labels
@buffered_other_labels
end
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#collecting_event ⇒ True, ...
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# File 'lib/queries/collection_object/filter.rb', line 243
def collecting_event
@collecting_event
end
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#collecting_event_id ⇒ Object
- Array
-
only return objects with these collecting event ID
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# File 'lib/queries/collection_object/filter.rb', line 105
def collecting_event_id
@collecting_event_id
end
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#collection_object_id ⇒ Object
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# File 'lib/queries/collection_object/filter.rb', line 97
def collection_object_id
@collection_object_id
end
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#collection_object_type ⇒ Object
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# File 'lib/queries/collection_object/filter.rb', line 101
def collection_object_type
@collection_object_type
end
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#collectors ⇒ Boolean?
Returns true - A collector role exists false - A collector role exists nil - not applied.
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# File 'lib/queries/collection_object/filter.rb', line 150
def collectors
@collectors
end
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#current_determinations ⇒ Boolean?
Returns nil = TaxonDeterminations match regardless of current or historical true = TaxonDetermination must be .current false = TaxonDetermination must be .historical.
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# File 'lib/queries/collection_object/filter.rb', line 138
def current_determinations
@current_determinations
end
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#current_repository ⇒ True, ...
Returns true - has current_repository_id false - does not have current_repository_id nil - not applied.
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# File 'lib/queries/collection_object/filter.rb', line 227
def current_repository
@current_repository
end
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#current_repository_id ⇒ CurrentRepository#id?
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# File 'lib/queries/collection_object/filter.rb', line 189
def current_repository_id
@current_repository_id
end
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#dates ⇒ Object
Returns Boolean true - any of start/end date or verbatim date are populated false - none of start/end date or verbatim date are populated nil - ignored.
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# File 'lib/queries/collection_object/filter.rb', line 314
def dates
@dates
end
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#deaccessioned ⇒ Boolean?
Returns nil = Ignored true = CollectionObject with deaccessioned_at OR deaccessioned_reason populated or deaccession_recipient.present? false = without true.
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# File 'lib/queries/collection_object/filter.rb', line 126
def deaccessioned
@deaccessioned
end
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#descendants ⇒ Object
Returns the value of attribute descendants.
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# File 'lib/queries/collection_object/filter.rb', line 120
def descendants
@descendants
end
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#determiner_id ⇒ Array
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# File 'lib/queries/collection_object/filter.rb', line 254
def determiner_id
@determiner_id
end
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#determiner_id_or ⇒ Boolean
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# File 'lib/queries/collection_object/filter.rb', line 260
def determiner_id_or
@determiner_id_or
end
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#determiner_name_regex ⇒ Object
A PostgreSQL valid regular expression. Note that simple strings evaluate as wildcard matches. !! Probably shouldn’t expose to external API.
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# File 'lib/queries/collection_object/filter.rb', line 304
def determiner_name_regex
@determiner_name_regex
end
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#determiners ⇒ Boolean?
Returns true - A determiner role exists false - No determiner role exists nil - not applied.
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# File 'lib/queries/collection_object/filter.rb', line 144
def determiners
@determiners
end
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#dwc_indexed ⇒ True, ...
Returns true - index is built false - index is not built nil - not applied.
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# File 'lib/queries/collection_object/filter.rb', line 180
def dwc_indexed
@dwc_indexed
end
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#exact_buffered_collecting_event ⇒ Boolean?
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# File 'lib/queries/collection_object/filter.rb', line 274
def exact_buffered_collecting_event
@exact_buffered_collecting_event
end
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#exact_buffered_determinations ⇒ Boolean?
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# File 'lib/queries/collection_object/filter.rb', line 268
def exact_buffered_determinations
@exact_buffered_determinations
end
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#exact_buffered_other_labels ⇒ Boolean?
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# File 'lib/queries/collection_object/filter.rb', line 277
def exact_buffered_other_labels
@exact_buffered_other_labels
end
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Returns Array match all CollectionObjects that are the origin of these Extracts.
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# File 'lib/queries/collection_object/filter.rb', line 308
def
@extract_id
end
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#geographic_area ⇒ True, ...
Returns true - has collecting event that has geographic_area false - does not have collecting event that has geographic area nil - not applied.
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# File 'lib/queries/collection_object/filter.rb', line 249
def geographic_area
@geographic_area
end
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#georeferences ⇒ True, ...
Returns true - has one ore more georeferences false - does not have any georeferences nil - not applied.
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# File 'lib/queries/collection_object/filter.rb', line 215
def georeferences
@georeferences
end
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#import_dataset_id ⇒ Array
Returns of ImportDataset ids.
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# File 'lib/queries/collection_object/filter.rb', line 83
def import_dataset_id
@import_dataset_id
end
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#is_type ⇒ Array?
Returns one of ‘holotype`, `lectotype` etc.
nil - not applied.
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# File 'lib/queries/collection_object/filter.rb', line 194
def is_type
@is_type
end
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#loan_id ⇒ Array
Returns a list of loan#id, all collection objects inside them will be included.
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# File 'lib/queries/collection_object/filter.rb', line 166
def loan_id
@loan_id
end
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#loaned ⇒ Object
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# File 'lib/queries/collection_object/filter.rb', line 158
def loaned
@loaned
end
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#never_loaned ⇒ Object
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# File 'lib/queries/collection_object/filter.rb', line 162
def never_loaned
@never_loaned
end
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#on_loan ⇒ Object
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# File 'lib/queries/collection_object/filter.rb', line 154
def on_loan
@on_loan
end
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#otu_id ⇒ Array?
Returns Otu ids, matches on the TaxonDetermination, see also current_determinations.
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# File 'lib/queries/collection_object/filter.rb', line 113
def otu_id
@otu_id
end
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#preparation_type ⇒ True, ...
Returns true - has preparation_type false - does not have preparation_type nil - not applied.
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# File 'lib/queries/collection_object/filter.rb', line 233
def preparation_type
@preparation_type
end
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#preparation_type_id ⇒ Array
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# File 'lib/queries/collection_object/filter.rb', line 236
def preparation_type_id
@preparation_type_id
end
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#repository ⇒ True, ...
Returns true - has repository_id false - does not have repository_id nil - not applied.
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# File 'lib/queries/collection_object/filter.rb', line 221
def repository
@repository
end
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#repository_id ⇒ Repository#id?
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# File 'lib/queries/collection_object/filter.rb', line 186
def repository_id
@repository_id
end
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#sled_image_id ⇒ SledImage#id?
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# File 'lib/queries/collection_object/filter.rb', line 197
def sled_image_id
@sled_image_id
end
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#taxon_determinations ⇒ True, ...
Returns true - has one ore more taxon_determinations false - does not have any taxon_determinations nil - not applied.
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# File 'lib/queries/collection_object/filter.rb', line 203
def taxon_determinations
@taxon_determinations
end
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#taxon_name ⇒ True, ...
Returns true - Otu has taxon name false - Otu without taxon name nil - not applied.
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# File 'lib/queries/collection_object/filter.rb', line 209
def taxon_name
@taxon_name
end
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#taxon_name_id ⇒ Array of Protonym.id?
Return all collection objects determined as an Otu that is self or descendant linked to this TaxonName
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# File 'lib/queries/collection_object/filter.rb', line 118
def taxon_name_id
@taxon_name_id
end
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#type_material ⇒ True, ...
Returns true - has collecting event that has geographic_area false - does not have collecting event that has geographic area nil - not applied.
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# File 'lib/queries/collection_object/filter.rb', line 286
def type_material
@type_material
end
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#type_specimen_taxon_name_id ⇒ Protonym#id?
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# File 'lib/queries/collection_object/filter.rb', line 183
def type_specimen_taxon_name_id
@type_specimen_taxon_name_id
end
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#validity ⇒ Boolean?
Returns nil = Match against all ancestors, valid or invalid true = Match against only valid ancestors false = Match against only invalid ancestors.
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# File 'lib/queries/collection_object/filter.rb', line 132
def validity
@validity
end
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#with_buffered_collecting_event ⇒ Object
See with_buffered_determinations
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# File 'lib/queries/collection_object/filter.rb', line 295
def with_buffered_collecting_event
@with_buffered_collecting_event
end
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#with_buffered_determinations ⇒ Boolean?
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# File 'lib/queries/collection_object/filter.rb', line 292
def with_buffered_determinations
@with_buffered_determinations
end
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#with_buffered_other_labels ⇒ Object
See with_buffered_determinations
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# File 'lib/queries/collection_object/filter.rb', line 298
def with_buffered_other_labels
@with_buffered_other_labels
end
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Instance Method Details
#and_clauses ⇒ Object
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# File 'lib/queries/collection_object/filter.rb', line 978
def and_clauses
[
attribute_exact_facet(:buffered_collecting_event),
attribute_exact_facet(:buffered_determinations),
attribute_exact_facet(:buffered_other_labels),
collecting_event_id_facet,
collection_object_id_facet,
current_repository_id_facet,
preparation_type_id_facet,
repository_id_facet,
type_facet,
]
end
|
#base_collecting_event_query_facet ⇒ Object
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# File 'lib/queries/collection_object/filter.rb', line 875
def base_collecting_event_query_facet
base_collecting_event_query.project_id = nil
return nil if base_collecting_event_query.all(true).nil?
base_collecting_event_query.project_id = project_id
s = 'WITH query_ce_base_co AS (' + base_collecting_event_query.all.to_sql + ') ' +
::CollectionObject
.joins('JOIN query_ce_base_co as query_ce_base_co1 on query_ce_base_co1.id = collection_objects.collecting_event_id')
.to_sql
::CollectionObject.from('(' + s + ') as collection_objects').distinct
end
|
#biocuration_facet ⇒ Object
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# File 'lib/queries/collection_object/filter.rb', line 633
def biocuration_facet
return nil if biocuration_class_id.empty?
::CollectionObject::BiologicalCollectionObject.joins(:biocuration_classifications)
.where(biocuration_classifications: { biocuration_class_id: })
end
|
#biological_association_id_facet ⇒ Object
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# File 'lib/queries/collection_object/filter.rb', line 912
def biological_association_id_facet
return nil if biological_association_id.empty?
b = ::BiologicalAssociation.where(id: biological_association_id)
s = 'WITH query_ba_id_co AS (' + b.all.to_sql + ') ' +
::CollectionObject
.joins("LEFT JOIN query_ba_id_co as query_ba_id_co1 on collection_objects.id = query_ba_id_co1.biological_association_subject_id AND query_ba_id_co1.biological_association_subject_type = 'CollectionObject'")
.joins("LEFT JOIN query_ba_id_co as query_ba_id_co2 on collection_objects.id = query_ba_id_co2.biological_association_object_id AND query_ba_id_co2.biological_association_object_type = 'CollectionObject'")
.where('(query_ba_id_co1.id) IS NOT NULL OR (query_ba_id_co2.id IS NOT NULL)')
.to_sql
::CollectionObject.from('(' + s + ') as collection_objects').distinct
end
|
#biological_association_query_facet ⇒ Object
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# File 'lib/queries/collection_object/filter.rb', line 926
def biological_association_query_facet
return nil if biological_association_query.nil?
s = 'WITH query_ba_co AS (' + biological_association_query.all.to_sql + ') ' +
::CollectionObject
.joins("LEFT JOIN query_ba_co as query_ba_co1 on collection_objects.id = query_ba_co1.biological_association_subject_id AND query_ba_co1.biological_association_subject_type = 'CollectionObject'")
.joins("LEFT JOIN query_ba_co as query_ba_co2 on collection_objects.id = query_ba_co2.biological_association_object_id AND query_ba_co2.biological_association_object_type = 'CollectionObject'")
.where('(query_ba_co1.id) IS NOT NULL OR (query_ba_co2.id IS NOT NULL)')
.to_sql
::CollectionObject.from('(' + s + ') as collection_objects').distinct
end
|
#biological_associations_facet ⇒ Object
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# File 'lib/queries/collection_object/filter.rb', line 903
def biological_associations_facet
return nil if biological_associations.nil?
a = ::CollectionObject.joins(:biological_associations)
b = ::CollectionObject.joins(:related_biological_associations)
referenced_klass_union([a, b])
end
|
#biological_relationship_id_facet ⇒ Object
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# File 'lib/queries/collection_object/filter.rb', line 654
def biological_relationship_id_facet
return nil if biological_relationship_id.empty?
::CollectionObject.with_biological_relationship_id(biological_relationship_id)
end
|
#collecting_event_facet ⇒ Object
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# File 'lib/queries/collection_object/filter.rb', line 584
def collecting_event_facet
return nil if collecting_event.nil?
if collecting_event
::CollectionObject.where.not(collecting_event_id: nil)
else
::CollectionObject.where(collecting_event_id: nil)
end
end
|
#collecting_event_id_facet ⇒ Object
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# File 'lib/queries/collection_object/filter.rb', line 682
def collecting_event_id_facet
return nil if collecting_event_id.empty?
table[:collecting_event_id].in(collecting_event_id)
end
|
#collecting_event_query_facet ⇒ Object
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# File 'lib/queries/collection_object/filter.rb', line 855
def collecting_event_query_facet
return nil if collecting_event_query.nil?
s = 'WITH query_ce_co AS (' + collecting_event_query.all.to_sql + ') ' +
::CollectionObject
.joins('JOIN query_ce_co as query_ce_co1 on query_ce_co1.id = collection_objects.collecting_event_id')
.to_sql
::CollectionObject.from('(' + s + ') as collection_objects').distinct
end
|
#collecting_event_table ⇒ Arel::Table
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# File 'lib/queries/collection_object/filter.rb', line 389
def collecting_event_table
::CollectingEvent.arel_table
end
|
#collection_object_id_facet ⇒ Object
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# File 'lib/queries/collection_object/filter.rb', line 460
def collection_object_id_facet
return nil if collection_object_id.empty?
table[:id].in(collection_object_id)
end
|
#collectors_facet ⇒ Object
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# File 'lib/queries/collection_object/filter.rb', line 532
def collectors_facet
return nil if collectors.nil?
if collectors
::CollectionObject.joins(:collectors)
else
::CollectionObject.where.missing(:collectors)
end
end
|
#current_repository_facet ⇒ Object
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# File 'lib/queries/collection_object/filter.rb', line 566
def current_repository_facet
return nil if current_repository.nil?
if current_repository
::CollectionObject.where.not(current_repository_id: nil)
else
::CollectionObject.where(current_repository_id: nil)
end
end
|
#current_repository_id_facet ⇒ Object
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# File 'lib/queries/collection_object/filter.rb', line 697
def current_repository_id_facet
return nil if current_repository_id.blank?
table[:current_repository_id].eq(current_repository_id)
end
|
#dates_facet ⇒ Object
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# File 'lib/queries/collection_object/filter.rb', line 800
def dates_facet
return nil if dates.nil?
if dates
::CollectionObject.left_joins(:collecting_event).where(
'start_date_year IS NOT NULL OR ' \
'start_date_month IS NOT NULL OR ' \
'start_date_day IS NOT NULL OR ' \
'end_date_year IS NOT NULL OR ' \
'end_date_month IS NOT NULL OR ' \
'end_date_day IS NOT NULL OR ' \
'verbatim_date IS NOT NULL'
)
else
::CollectionObject.left_joins(:collecting_event).where(
collecting_event: {
start_date_year: nil,
start_date_month: nil,
start_date_day: nil,
end_date_year: nil,
end_date_month: nil,
end_date_day: nil,
verbatim_date: nil,
},
)
end
end
|
#deaccessioned_facet ⇒ Object
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# File 'lib/queries/collection_object/filter.rb', line 827
def deaccessioned_facet
return nil if deaccessioned.nil?
a = ::CollectionObject.where('(deaccession_reason IS NOT NULL) OR (deaccessioned_at IS NOT NULL)')
b = ::CollectionObject.joins(:deaccession_recipient)
c = referenced_klass_union([a, b])
if deaccessioned
c
else
s = 'WITH query_deac AS (' + c.all.to_sql + ') ' +
::CollectionObject
.joins('LEFT JOIN query_deac as query_deac1 on query_deac1.id = collection_objects.id')
.where('query_deac1.id IS NULL').to_sql
::CollectionObject.from('(' + s + ') as collection_objects').distinct
end
end
|
#determiner_facet ⇒ Object
TODO: DRY with Source (author), TaxonName, etc. See Queries::ColletingEvent::Filter for other use
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# File 'lib/queries/collection_object/filter.rb', line 490
def determiner_facet
return nil if determiner_id.empty?
tt = table
o = ::TaxonDetermination.arel_table
r = ::Role.arel_table
a = o.alias('a_det__')
b = o.project(a[Arel.star]).from(a)
c = r.alias('det_r1')
b = b.join(c, Arel::Nodes::OuterJoin)
.on(
a[:id].eq(c[:role_object_id])
.and(c[:role_object_type].eq('TaxonDetermination'))
.and(c[:type].eq('Determiner'))
)
e = c[:id].not_eq(nil)
f = c[:person_id].in(determiner_id)
b = b.where(e.and(f))
b = b.group(a['id'])
b = b.having(a['id'].count.eq(determiner_id.length)) unless determiner_id_or
b = b.as('det_z1_')
::CollectionObject.joins(Arel::Nodes::InnerJoin.new(b,
Arel::Nodes::On.new( b['taxon_determination_object_id'].eq(tt['id']).and( b['taxon_determination_object_type'].eq('CollectionObject') )
)))
end
|
#determiner_name_regex_facet ⇒ Object
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# File 'lib/queries/collection_object/filter.rb', line 541
def determiner_name_regex_facet
return nil if determiner_name_regex.nil?
::CollectionObject.joins(:determiners).where('people.cached ~* ?', determiner_name_regex)
end
|
#determiners_facet ⇒ Object
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# File 'lib/queries/collection_object/filter.rb', line 523
def determiners_facet
return nil if determiners.nil?
if determiners
::CollectionObject.joins(:determiners)
else
::CollectionObject.where.missing(:determiners)
end
end
|
#dwc_indexed_facet ⇒ Object
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# File 'lib/queries/collection_object/filter.rb', line 675
def dwc_indexed_facet
return nil if dwc_indexed.nil?
dwc_indexed ?
::CollectionObject.dwc_indexed :
::CollectionObject.dwc_not_indexed
end
|
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# File 'lib/queries/collection_object/filter.rb', line 471
def
return nil if .empty?
::CollectionObject
.joins(:origin_relationships)
.where(origin_relationships: { new_object_id: , new_object_type: 'Extract' })
end
|
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# File 'lib/queries/collection_object/filter.rb', line 938
def
return nil if .nil?
s = 'WITH query_extract_co AS (' + .all.to_sql + ') ' +
::CollectionObject
.joins(:origin_relationships)
.joins("JOIN query_extract_co as query_extract_co1 on origin_relationships.new_object_id = query_extract_co1.id and origin_relationships.new_object_type = 'Extract'")
.to_sql
::CollectionObject.from('(' + s + ') as collection_objects').distinct
end
|
#geographic_area_facet ⇒ Object
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# File 'lib/queries/collection_object/filter.rb', line 621
def geographic_area_facet
return nil if geographic_area.nil?
if geographic_area
::CollectionObject.joins(:collecting_event).where.not(collecting_events: { geographic_area_id: nil }).distinct
else
::CollectionObject.left_outer_joins(:collecting_event)
.where(collecting_events: { geographic_area_id: nil })
.distinct
end
end
|
#georeferences_facet ⇒ Object
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# File 'lib/queries/collection_object/filter.rb', line 546
def georeferences_facet
return nil if georeferences.nil?
if georeferences
::CollectionObject.joins(:georeferences).distinct
else
::CollectionObject.left_outer_joins(:georeferences)
.where(georeferences: { id: nil })
.distinct
end
end
|
#housekeeping_extensions ⇒ Object
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# File 'lib/queries/collection_object/filter.rb', line 962
def housekeeping_extensions
[
housekeeping_extension_query(target: ::CollectingEvent, joins: [:collecting_event]),
housekeeping_extension_query(target: ::TaxonDetermination, joins: [:taxon_determinations]),
housekeeping_extension_query(target: ::DataAttribute, joins: [:data_attributes]),
housekeeping_extension_query(target: ::Georeference, joins: [:georeferences]),
housekeeping_extension_query(target: ::DataAttribute, joins: {collecting_event: [:data_attributes]}),
housekeeping_extension_query(target: ::DataAttribute, joins: {collecting_event: [:data_attributes]}),
housekeeping_extension_query(target: ::Note, joins: {collecting_event: [:notes]}),
housekeeping_extension_query(target: ::Note, joins: [:notes]),
housekeeping_extension_query(target: ::Role, joins: [:roles]),
housekeeping_extension_query(target: ::Role, joins: {collecting_event: [:roles]}),
housekeeping_extension_query(target: ::Role, joins: { taxon_determinations: [:determiner_roles]}),
]
end
|
#import_dataset_id_facet ⇒ Object
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# File 'lib/queries/collection_object/filter.rb', line 465
def import_dataset_id_facet
return nil if import_dataset_id.blank?
::CollectionObject.joins(:related_origin_relationships)
.where(origin_relationships: {old_object_id: import_dataset_id, old_object_type: 'ImportDataset'})
end
|
#loan_facet ⇒ Object
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# File 'lib/queries/collection_object/filter.rb', line 639
def loan_facet
return nil if loan_id.empty?
::CollectionObject::BiologicalCollectionObject.joins(:loans).where(loans: { id: loan_id })
end
|
#loan_query_facet ⇒ Object
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# File 'lib/queries/collection_object/filter.rb', line 865
def loan_query_facet
return nil if loan_query.nil?
s = 'WITH query_loan_co AS (' + loan_query.all.to_sql + ') ' +
::CollectionObject.joins(:loan_items)
.joins('JOIN query_loan_co as query_loan_co1 on query_loan_co1.id = loan_items.loan_id')
.to_sql
::CollectionObject.from('(' + s + ') as collection_objects').distinct
end
|
#loaned_facet ⇒ Object
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# File 'lib/queries/collection_object/filter.rb', line 659
def loaned_facet
return nil unless loaned
::CollectionObject.loaned
end
|
#merge_clauses ⇒ Object
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# File 'lib/queries/collection_object/filter.rb', line 992
def merge_clauses
[
import_dataset_id_facet,
observation_query_facet,
biological_association_id_facet,
base_collecting_event_query_facet,
biological_association_query_facet,
collecting_event_query_facet,
,
loan_query_facet,
otu_query_facet,
taxon_name_query_facet,
biocuration_facet,
biological_associations_facet,
biological_relationship_id_facet,
collecting_event_facet,
collectors_facet,
current_repository_facet,
dates_facet,
deaccessioned_facet,
determiner_facet,
determiner_name_regex_facet,
determiners_facet,
dwc_indexed_facet,
,
geographic_area_facet,
georeferences_facet,
loan_facet,
loaned_facet,
never_loaned_facet,
on_loan_facet,
otu_id_facet,
preparation_type_facet,
repository_facet,
sled_image_facet,
taxon_determinations_facet,
taxon_name_id_facet,
type_by_taxon_name_facet,
type_material_facet,
type_material_type_facet,
with_buffered_collecting_event_facet,
with_buffered_determinations_facet,
with_buffered_other_labels_facet,
]
end
|
#never_loaned_facet ⇒ Object
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# File 'lib/queries/collection_object/filter.rb', line 664
def never_loaned_facet
return nil unless never_loaned
::CollectionObject.never_loaned
end
|
#observation_query_facet ⇒ Object
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# File 'lib/queries/collection_object/filter.rb', line 950
def observation_query_facet
return nil if observation_query.nil?
s = 'WITH query_obs_co AS (' + observation_query.all.to_sql + ') ' +
::CollectionObject
.joins(:observations)
.joins('JOIN query_obs_co as query_obs_co1 on observations.id = query_obs_co1.id')
.to_sql
::CollectionObject.from('(' + s + ') as collection_objects').distinct
end
|
#on_loan_facet ⇒ Object
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# File 'lib/queries/collection_object/filter.rb', line 670
def on_loan_facet
return nil unless on_loan
::CollectionObject.on_loan
end
|
#otu_id_facet ⇒ Object
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# File 'lib/queries/collection_object/filter.rb', line 735
def otu_id_facet
return nil if otu_id.empty?
w = taxon_determination_table[:taxon_determination_object_id].eq(table[:id])
.and(taxon_determination_table[:otu_id].in(otu_id))
.and(taxon_determination_table[:taxon_determination_object_type].eq('CollectionObject'))
if current_determinations
w = w.and(taxon_determination_table[:position].eq(1))
elsif current_determinations == false
w = w.and(taxon_determination_table[:position].gt(1))
end
::CollectionObject.where(
::TaxonDetermination.where(w).arel.exists
)
end
|
#otu_query_facet ⇒ Object
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# File 'lib/queries/collection_object/filter.rb', line 891
def otu_query_facet
return nil if otu_query.nil?
s = 'WITH query_otu_co AS (' + otu_query.all.to_sql + ') ' +
::CollectionObject
.joins(:taxon_determinations)
.joins('JOIN query_otu_co as query_otu_co1 on query_otu_co1.id = taxon_determinations.otu_id')
.where(taxon_determinations: { position: 1 })
.to_sql
::CollectionObject.from('(' + s + ') as collection_objects').distinct
end
|
#otu_table ⇒ Arel::Table
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# File 'lib/queries/collection_object/filter.rb', line 394
def otu_table
::Otu.arel_table
end
|
#preparation_type_facet ⇒ Object
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# File 'lib/queries/collection_object/filter.rb', line 575
def preparation_type_facet
return nil if preparation_type.nil?
if preparation_type
::CollectionObject.where.not(preparation_type_id: nil)
else
::CollectionObject.where(preparation_type_id: nil)
end
end
|
#preparation_type_id_facet ⇒ Object
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# File 'lib/queries/collection_object/filter.rb', line 687
def preparation_type_id_facet
return nil if preparation_type_id.empty?
table[:preparation_type_id].in(preparation_type_id)
end
|
#repository_facet ⇒ Object
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# File 'lib/queries/collection_object/filter.rb', line 557
def repository_facet
return nil if repository.nil?
if repository
::CollectionObject.where.not(repository_id: nil)
else
::CollectionObject.where(repository_id: nil)
end
end
|
#repository_id_facet ⇒ Object
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# File 'lib/queries/collection_object/filter.rb', line 692
def repository_id_facet
return nil if repository_id.blank?
table[:repository_id].in(repository_id)
end
|
#sled_image_facet ⇒ Object
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# File 'lib/queries/collection_object/filter.rb', line 649
def sled_image_facet
return nil if sled_image_id.nil?
::CollectionObject::BiologicalCollectionObject.joins(:depictions).where('depictions.sled_image_id = ?', sled_image_id)
end
|
#taxon_determination_table ⇒ Arel::Table
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# File 'lib/queries/collection_object/filter.rb', line 404
def taxon_determination_table
::TaxonDetermination.arel_table
end
|
#taxon_determinations_facet ⇒ Object
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# File 'lib/queries/collection_object/filter.rb', line 478
def taxon_determinations_facet
return nil if taxon_determinations.nil?
if taxon_determinations
::CollectionObject.joins(:taxon_determinations).distinct
else
::CollectionObject.where.missing(:taxon_determinations)
end
end
|
#taxon_name_id_facet ⇒ Object
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# File 'lib/queries/collection_object/filter.rb', line 753
def taxon_name_id_facet
return nil if taxon_name_id.empty?
q = nil
z = nil
if descendants
h = Arel::Table.new(:taxon_name_hierarchies)
t = ::TaxonName.arel_table
q = table.join(taxon_determination_table, Arel::Nodes::InnerJoin).on(
table[:id].eq(taxon_determination_table[:taxon_determination_object_id])
.and(taxon_determination_table[:taxon_determination_object_type]).eq('CollectionObject')
).join(otu_table, Arel::Nodes::InnerJoin).on(
taxon_determination_table[:otu_id].eq(otu_table[:id])
).join(t, Arel::Nodes::InnerJoin).on(
otu_table[:taxon_name_id].eq(t[:id])
).join(h, Arel::Nodes::InnerJoin).on(
t[:id].eq(h[:descendant_id])
)
z = h[:ancestor_id].in(taxon_name_id)
if validity == true
z = z.and(t[:cached_valid_taxon_name_id].eq(t[:id]))
elsif validity == false
z = z.and(t[:cached_valid_taxon_name_id].not_eq(t[:id]))
end
if current_determinations == true
z = z.and(taxon_determination_table[:position].eq(1))
elsif current_determinations == false
z = z.and(taxon_determination_table[:position].gt(1))
end
else
q = ::CollectionObject.joins(taxon_determinations: [:otu])
.where(otus: { taxon_name_id: })
if current_determinations
q = q.where(taxon_determinations: { position: 1 })
end
return q
end
::CollectionObject.joins(q.join_sources).where(z).distinct
end
|
#taxon_name_query_facet ⇒ Object
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# File 'lib/queries/collection_object/filter.rb', line 844
def taxon_name_query_facet
return nil if taxon_name_query.nil?
s = 'WITH query_tn_co AS (' + taxon_name_query.all.to_sql + ') ' +
::CollectionObject
.joins(:taxon_names)
.joins('JOIN query_tn_co as query_tn_co1 on query_tn_co1.id = taxon_names.id')
.to_sql
::CollectionObject.from('(' + s + ') as collection_objects').distinct
end
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#type_by_taxon_name_facet ⇒ Object
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# File 'lib/queries/collection_object/filter.rb', line 702
def type_by_taxon_name_facet
return nil if type_specimen_taxon_name_id.nil?
w = type_materials_table[:collection_object_id].eq(table[:id])
.and(type_materials_table[:protonym_id].eq(type_specimen_taxon_name_id))
::CollectionObject.where(
::TypeMaterial.where(w).arel.exists
)
end
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#type_facet ⇒ Object
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# File 'lib/queries/collection_object/filter.rb', line 644
def type_facet
return nil if collection_object_type.nil?
table[:type].eq(collection_object_type)
end
|
#type_material_facet ⇒ Object
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# File 'lib/queries/collection_object/filter.rb', line 724
def type_material_facet
return nil if type_material.nil?
if type_material
::CollectionObject.joins(:type_materials).distinct
else
::CollectionObject.left_outer_joins(:type_materials)
.where(type_materials: { id: nil })
.distinct
end
end
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#type_material_type_facet ⇒ Object
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# File 'lib/queries/collection_object/filter.rb', line 713
def type_material_type_facet
return nil if is_type.empty?
w = type_materials_table[:collection_object_id].eq(table[:id])
.and(type_materials_table[:type_type].in(is_type))
::CollectionObject.where(
::TypeMaterial.where(w).arel.exists
)
end
|
#type_materials_table ⇒ Arel::Table
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# File 'lib/queries/collection_object/filter.rb', line 399
def type_materials_table
::TypeMaterial.arel_table
end
|
#with_buffered_collecting_event_facet ⇒ Object
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# File 'lib/queries/collection_object/filter.rb', line 593
def with_buffered_collecting_event_facet
return nil if with_buffered_collecting_event.nil?
if with_buffered_collecting_event
::CollectionObject.where.not(buffered_collecting_event: nil)
else
::CollectionObject.where(buffered_collecting_event: nil)
end
end
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#with_buffered_determinations_facet ⇒ Object
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# File 'lib/queries/collection_object/filter.rb', line 611
def with_buffered_determinations_facet
return nil if with_buffered_determinations.nil?
if with_buffered_determinations
::CollectionObject.where.not(buffered_determinations: nil)
else
::CollectionObject.where(buffered_determinations: nil)
end
end
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#with_buffered_other_labels_facet ⇒ Object
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# File 'lib/queries/collection_object/filter.rb', line 602
def with_buffered_other_labels_facet
return nil if with_buffered_other_labels.nil?
if with_buffered_other_labels
::CollectionObject.where.not(buffered_other_labels: nil)
else
::CollectionObject.where(buffered_other_labels: nil)
end
end
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