Class: Queries::CollectingEvent::Filter

Inherits:
Query::Filter show all
Includes:
Queries::Concerns::Attributes, Queries::Concerns::Citations, Queries::Concerns::Confidences, Queries::Concerns::DataAttributes, Queries::Concerns::DateRanges, Queries::Concerns::Depictions, Queries::Concerns::Notes, Queries::Concerns::Protocols, Queries::Concerns::Tags, Helpers
Defined in:
lib/queries/collecting_event/filter.rb

Constant Summary collapse

ATTRIBUTES =

Params exists for all CollectingEvent attributes except these. geographic_area_id is excluded because we handle it specially in conjunction with ‘geographic_area_mode“ Definition must preceed include.

(::CollectingEvent.core_attributes - %w{geographic_area_id} + %w(cached_level0_geographic_name cached_level1_geographic_name cached_level2_geographic_name)).map(&:to_sym).freeze
BASE_PARAMS =

This list of params are those that only occur in this CollectingEvent filter. For those that overlap other filters place in PARAMS.

Used to define a base collecting query for CollectionObject filters scope, this is still used in CollectionObject query. This is “necessary” so that we can use CollectingEvent referencing facets in the CollectionObject filter for convienience.

[
  *Queries::Concerns::Attributes.params,
  *ATTRIBUTES,
  :collectors,
  :collecting_event_object_id,
  :collection_objects,
  :collector_id,
  :collector_id_or,
  :collecting_event_id,
  :determiner_name_regex,
  :geo_json,
  :geographic_area,
  :geographic_area_id,
  :geographic_area_mode,
  :georeferences,
  :in_labels,
  :md5_verbatim_label,
  :radius,
  :use_max,
  :use_min,
  :wkt,
  collecting_event_id: [],
  collector_id: [],
  geographic_area_id: [],
].inject([{}]){|ary, k| k.is_a?(Hash) ? ary.last.merge!(k) : ary.unshift(k); ary}.freeze
PARAMS = 
[
  *BASE_PARAMS,
  :otu_id,
  :collection_object_id,
  collection_object_id: [],
  otu_id: [],
].inject([{}]){|ary, k| k.is_a?(Hash) ? ary.last.merge!(k) : ary.unshift(k); ary}.freeze

Constants inherited from Query::Filter

Query::Filter::FILTER_QUERIES, Query::Filter::SUBQUERIES

Instance Attribute Summary collapse

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, #sound_query, #taxon_name_query, #venn, #venn_mode

Attributes inherited from Query

#query_string, #terms

Class Method Summary collapse

Instance Method Summary collapse

Methods included from Helpers

#boolean_param, #integer_param

Methods inherited from Query::Filter

#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, base_query_name, base_query_to_h, #deep_permit, included_annotator_facets, instantiated_base_filter, inverted_subqueries, #model_id_facet, #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/collecting_event/filter.rb', line 151

def initialize(query_params)
  super

  @collectors = boolean_param(params, :collectors )
  @collecting_event_id = params[:collecting_event_id]
  @collection_object_id = params[:collection_object_id]
  @collection_objects = boolean_param(params, :collection_objects )
  @collector_id = params[:collector_id]
  @collector_id_or = boolean_param(params, :collector_id_or )
  @geo_json = params[:geo_json]
  @geographic_area = boolean_param(params, :geographic_area)
  @geographic_area_id = params[:geographic_area_id]
  @geographic_area_mode = boolean_param(params, :geographic_area_mode)
  @georeferences = boolean_param(params, :georeferences)
  @in_labels = params[:in_labels]
  @md5_verbatim_label = params[:md5_verbatim_label]&.to_s&.downcase == 'true'
  @otu_id = params[:otu_id].presence
  @radius = params[:radius].presence || 100.0
  @use_max = params[:use_max]
  @use_min = params[:use_min]
  @wkt = params[:wkt]

  set_confidences_params(params)
  set_attributes_params(params)
  set_citations_params(params)
  set_data_attributes_params(params)
  set_date_params(params)
  set_depiction_params(params)
  set_notes_params(params)
  set_protocols_params(params)
  set_tags_params(params)
end

Instance Attribute Details

#collecting_event_id ⇒ Object

Parameters:

  • collecting_event_id (Array, Integer, nil) —

    One or more collecting_event_id



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# File 'lib/queries/collecting_event/filter.rb', line 79

def collecting_event_id
  @collecting_event_id
end

#collection_object_id ⇒ Object

Returns Array.

Parameters:

  • collection_object_id (Array, Integer, String) —

    all collecting events matching collection objects

Returns:

  • Array



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# File 'lib/queries/collecting_event/filter.rb', line 124

def collection_object_id
  @collection_object_id
end

#collection_objects ⇒ Object

Parameters:

  • collection_objects (String, nil) —

    legal values are ‘true’, ‘false’ ‘true` - match only CollectingEvents with associated CollectionObjects `false` - match only CollectingEvents without associated CollectionObjects



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# File 'lib/queries/collecting_event/filter.rb', line 119

def collection_objects
  @collection_objects
end

#collector_id ⇒ Array

DONE: singularize and handle array or single

Returns:

  • (Array) 


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# File 'lib/queries/collecting_event/filter.rb', line 104

def collector_id
  @collector_id
end

#collector_id_or ⇒ Boolean

Parameters:

  • collector_id_or (String) —

    ‘false`, nil - treat the ids in collector_id as “or” ’true’ - treat the ids in collector_id as “and” (only CollectingEvent with all and only all of collector_id will match)

Returns:

  • (Boolean) 


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# File 'lib/queries/collecting_event/filter.rb', line 110

def collector_id_or
  @collector_id_or
end

#collectors ⇒ Boolean?

Returns true - A collector role exists false - A collector role exists nil - not applied.

Returns:

  • (Boolean, nil) —

    true - A collector role exists false - A collector role exists nil - not applied



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# File 'lib/queries/collecting_event/filter.rb', line 75

def collectors
  @collectors
end

#geo_json ⇒ Hash?

Returns in geo_json format (no Feature …) ?!.

Returns:

  • (Hash, nil) —

    in geo_json format (no Feature …) ?!



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# File 'lib/queries/collecting_event/filter.rb', line 96

def geo_json
  @geo_json
end

#geographic_area ⇒ True, ...

Returns true - has geographic_area present false - without geographic_area nil - not applied.

Returns:

  • (True, False, nil) —

    true - has geographic_area present false - without geographic_area nil - not applied



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# File 'lib/queries/collecting_event/filter.rb', line 136

def geographic_area
  @geographic_area
end

#geographic_area_id ⇒ Object

See /lib/queries/otu/filter.rb



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# File 'lib/queries/collecting_event/filter.rb', line 139

def geographic_area_id
  @geographic_area_id
end

#geographic_area_mode ⇒ Object

Returns the value of attribute geographic_area_mode.



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# File 'lib/queries/collecting_event/filter.rb', line 140

def geographic_area_mode
  @geographic_area_mode
end

#georeferences ⇒ True, ...

Returns true - georeferences false - not georeferenced nil - not applied.

Returns:

  • (True, False, nil) —

    true - georeferences false - not georeferenced nil - not applied



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# File 'lib/queries/collecting_event/filter.rb', line 130

def georeferences
  @georeferences
end

#in_labels ⇒ Object

Wildcard wrapped matching any label



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# File 'lib/queries/collecting_event/filter.rb', line 82

def in_labels
  @in_labels
end

#md5_verbatim_label ⇒ Object

If true then in_labels checks only the MD5



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# File 'lib/queries/collecting_event/filter.rb', line 85

def md5_verbatim_label
  @md5_verbatim_label
end

#otu_id ⇒ Array

DONE: singularize and handle array or single

Returns:

  • (Array) 


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# File 'lib/queries/collecting_event/filter.rb', line 100

def otu_id
  @otu_id
end

#radius ⇒ Object

Integer in Meters

!! defaults to 100m



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# File 'lib/queries/collecting_event/filter.rb', line 92

def radius
  @radius
end

#use_max ⇒ String?

Returns the maximum number of CollectionObjects linked to CollectingEvent must be > use_min, defaults to use_min if blank and use_min.

Returns:

  • (String, nil) —

    the maximum number of CollectionObjects linked to CollectingEvent must be > use_min, defaults to use_min if blank and use_min



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# File 'lib/queries/collecting_event/filter.rb', line 145

def use_max
  @use_max
end

#use_min ⇒ String?

Returns the minimum number of CollectionObjects linked to CollectingEvent.

Returns:

  • (String, nil) —

    the minimum number of CollectionObjects linked to CollectingEvent



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# File 'lib/queries/collecting_event/filter.rb', line 149

def use_min
  @use_min
end

#wkt ⇒ Object

A spatial representation in well known text



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# File 'lib/queries/collecting_event/filter.rb', line 88

def wkt
  @wkt
end

Class Method Details

.base_params ⇒ Object 



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# File 'lib/queries/collecting_event/filter.rb', line 65

def self.base_params
  a = BASE_PARAMS.dup
  b = a.pop.keys
  (a + b).uniq
end

Instance Method Details

#and_clauses ⇒ Array

Returns:

  • (Array) 


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# File 'lib/queries/collecting_event/filter.rb', line 476

def and_clauses
  [
    between_date_range_facet,
    any_label_facet,
    collecting_event_id_facet,
    verbatim_label_md5_facet,
  ]
end

#any_label_facet ⇒ Object 



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# File 'lib/queries/collecting_event/filter.rb', line 353

def any_label_facet
  return nil if in_labels.blank?
  t = "%#{in_labels}%"
  table[:verbatim_label].matches(t).or(table[:print_label].matches(t)).or(table[:document_label].matches(t))
end

#biological_association_query_facet ⇒ Object 



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# File 'lib/queries/collecting_event/filter.rb', line 392

def biological_association_query_facet
  return nil if biological_association_query.nil?
  s = 'WITH query_ba_ces AS (' + biological_association_query.all.to_sql + ') ' +
    ::CollectingEvent.joins(:collection_objects)
    .joins("LEFT JOIN query_ba_ces as query_ba_ces1 on collection_objects.id = query_ba_ces1.biological_association_subject_id AND query_ba_ces1.biological_association_subject_type = 'CollectionObject'")
    .joins("LEFT JOIN query_ba_ces as query_ba_ces2 on collection_objects.id = query_ba_ces2.biological_association_object_id AND query_ba_ces2.biological_association_object_type = 'CollectionObject'")
    .where('(query_ba_ces1.id) IS NOT NULL OR (query_ba_ces2.id IS NOT NULL)')
    .to_sql

  ::CollectingEvent.from('(' + s + ') as collecting_events').distinct
end

#collecting_event_id_facet ⇒ Object 



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# File 'lib/queries/collecting_event/filter.rb', line 366

def collecting_event_id_facet
  return nil if collecting_event_id.empty?
  table[:id].in(collecting_event_id)
end

#collection_object_query_facet ⇒ Object 



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# File 'lib/queries/collecting_event/filter.rb', line 420

def collection_object_query_facet
  return nil if collection_object_query.nil?
  s = 'WITH query_co_ce AS (' + collection_object_query.all.to_sql + ') ' +
    ::CollectingEvent
    .joins(:collection_objects)
    .joins('JOIN query_co_ce as query_co_ce1 on collection_objects.id = query_co_ce1.id')
    .to_sql

  ::CollectingEvent.from('(' + s + ') as collecting_events').distinct
end

#collection_objects_facet ⇒ Object

Returns Scope.

Returns:

  • Scope



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# File 'lib/queries/collecting_event/filter.rb', line 280

def collection_objects_facet
  return nil if collection_objects.nil?
  subquery = ::CollectionObject.where(::CollectionObject.arel_table[:collecting_event_id].eq(::CollectingEvent.arel_table[:id])).arel.exists
  ::CollectingEvent.where(collection_objects ? subquery : subquery.not)
end

#collector_id_facet ⇒ Object

TODO: dry with Source, TaxonName, etc.



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# File 'lib/queries/collecting_event/filter.rb', line 287

def collector_id_facet
  return nil if collector_id.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('CollectingEvent'))
    .and(c[:type].eq('Collector'))
    )

  e = c[:id].not_eq(nil)
  f = c[:person_id].in(collector_id)

  b = b.where(e.and(f))
  b = b.group(a['id'])
  b = b.having(a['id'].count.eq(collector_id.length)) unless collector_id_or
  b = b.as('col_z_')

  ::CollectingEvent.joins(Arel::Nodes::InnerJoin.new(b, Arel::Nodes::On.new(b['id'].eq(o['id']))))
end

#collectors_facet ⇒ Object 



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# File 'lib/queries/collecting_event/filter.rb', line 383

def collectors_facet
  return nil if collectors.nil?
  if collectors
    ::CollectingEvent.joins(:collectors).distinct
  else
    ::CollectingEvent.where.missing(:collectors)
  end
end

#dwc_occurrence_query_facet ⇒ Object 



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# File 'lib/queries/collecting_event/filter.rb', line 442

def dwc_occurrence_query_facet
  return nil if dwc_occurrence_query.nil?

  s = ::CollectingEvent
    .with(query_dwc_ce: dwc_occurrence_query.all.select(:dwc_occurrence_object_id, :dwc_occurrence_object_type, :id))
    .joins('JOIN collection_objects co on co.collecting_event_id = collecting_events.id')
    .joins("JOIN dwc_occurrences dwo on dwo.dwc_occurrence_object_type = 'CollectionObject' and dwo.dwc_occurrence_object_id = co.id")
    .joins('JOIN query_dwc_ce as query_dwc_ce1 on query_dwc_ce1.id = dwo.id')
    .to_sql

  ::CollectingEvent.from('(' + s + ') as collecting_events').distinct
end

#field_occurrence_query_facet ⇒ Object 



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# File 'lib/queries/collecting_event/filter.rb', line 431

def field_occurrence_query_facet
  return nil if field_occurrence_query.nil?
  s = 'WITH query_fo_ce AS (' + field_occurrence_query.all.to_sql + ') ' +
    ::CollectingEvent
    .joins(:field_occurrences)
    .joins('JOIN query_fo_ce as query_fo_ce1 on field_occurrences.id = query_fo_ce1.id')
    .to_sql

  ::CollectingEvent.from('(' + s + ') as collecting_events').distinct
end

#from_wkt(wkt_shape) ⇒ Object

TODO: check, this should be simplifiable.



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# File 'lib/queries/collecting_event/filter.rb', line 321

def from_wkt(wkt_shape)
  a = RGeo::WKRep::WKTParser.new(Gis::FACTORY, support_wkt12: true)
  b = a.parse(wkt_shape)
  spatial_query(b.geometry_type.to_s, wkt_shape)
end

#geo_json_facet ⇒ Object

Shape is a Hash in GeoJSON format



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# File 'lib/queries/collecting_event/filter.rb', line 328

def geo_json_facet
  return nil if geo_json.nil?
  if a = RGeo::GeoJSON.decode(geo_json)
    return spatial_query(a.geometry_type.to_s, a.to_s)
  else
    return nil
  end
end

#geographic_area_facet ⇒ Object 



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# File 'lib/queries/collecting_event/filter.rb', line 235

def geographic_area_facet
  return nil if geographic_area.nil?
  if geographic_area
    ::CollectingEvent.where.not(geographic_area_id: nil).distinct
  else
    ::CollectingEvent.where(geographic_area_id: nil).distinct
  end
end

#geographic_area_id_facet ⇒ Object 



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# File 'lib/queries/collecting_event/filter.rb', line 244

def geographic_area_id_facet
  return nil if geographic_area_id.empty?

  a = nil

  case geographic_area_mode
  when nil, true # exact and spatial start the same
    a = ::GeographicArea.where(id: geographic_area_id)
  when false # descendants
    a = ::GeographicArea.descendants_of_any(geographic_area_id)
  end

  b = nil
  case geographic_area_mode
  when nil, false # exact, descendants
    return ::CollectingEvent.where(geographic_area: a)
  when true # spatial
    i = ::GeographicItem.joins(:geographic_areas).where(geographic_areas: a) # .unscope
    wkt_shape = ::GeographicItem.st_union(i).to_a.first['collection'].to_s
    return from_wkt(wkt_shape)
  end
end

#georeferences_facet ⇒ Object 



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# File 'lib/queries/collecting_event/filter.rb', line 267

def georeferences_facet
  return nil if georeferences.nil?

  if georeferences
    ::CollectingEvent.joins(:georeferences).distinct
  else
    ::CollectingEvent.left_outer_joins(:georeferences)
      .where(georeferences: {id: nil})
      .distinct
  end
end

#housekeeping_extensions ⇒ Object 



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# File 'lib/queries/collecting_event/filter.rb', line 466

def housekeeping_extensions
  [
    housekeeping_extension_query(target: ::DataAttribute, joins: [:data_attributes]),
    housekeeping_extension_query(target: ::Georeference, joins: [:georeferences]),
    housekeeping_extension_query(target: ::Note, joins: [:notes]),
    housekeeping_extension_query(target: ::Role, joins: [:roles]),
  ]
end

#matching_collection_object_id ⇒ Object 



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# File 'lib/queries/collecting_event/filter.rb', line 378

def matching_collection_object_id
  return nil if collection_object_id.empty?
  ::CollectingEvent.joins(:collection_objects).where(collection_objects: {id: collection_object_id}).distinct
end

#merge_clauses ⇒ Object 



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# File 'lib/queries/collecting_event/filter.rb', line 485

def merge_clauses
  [
    biological_association_query_facet,
    collection_object_query_facet,
    field_occurrence_query_facet,
    dwc_occurrence_query_facet,
    otu_query_facet,
    taxon_name_query_facet,

    collectors_facet,
    collection_objects_facet,
    collector_id_facet,
    geo_json_facet,
    geographic_area_facet,
    geographic_area_id_facet,
    georeferences_facet,
    matching_collection_object_id,
    otu_id_facet,
    use_facet,
    wkt_facet,
  ]
end

#otu_id_facet ⇒ Object 



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# File 'lib/queries/collecting_event/filter.rb', line 371

def otu_id_facet
  return nil if otu_id.empty?
  a = ::CollectingEvent.joins(:collection_object_otus).where(otus: {id: otu_id})
  b = ::CollectingEvent.joins(:field_occurrence_otus).where(otus: {id: otu_id})
  ::Queries.union(::CollectingEvent, [a,b]).distinct
end

#otu_query_facet ⇒ Object 



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# File 'lib/queries/collecting_event/filter.rb', line 404

def otu_query_facet
  return nil if otu_query.nil?

  a = ::CollectingEvent.with(otu_scope: otu_query.all)
    .joins(collection_objects: [:taxon_determinations])
    .joins('JOIN otu_scope on otu_scope.id = taxon_determinations.otu_id')
    .where(taxon_determinations: {position: 1})
 
  b = ::CollectingEvent.with(otu_scope: otu_query.all)
    .joins(field_occurrences: [:taxon_determinations])
    .joins('JOIN otu_scope on otu_scope.id = taxon_determinations.otu_id')
    .where(taxon_determinations: {position: 1})

  ::Queries.union(::CollectingEvent, [a,b])
end

#spatial_query(geometry_type, wkt) ⇒ Object

TODO: Spatial concern?



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# File 'lib/queries/collecting_event/filter.rb', line 338

def spatial_query(geometry_type, wkt)
  case geometry_type
  when 'Point'
    ::CollectingEvent
      .joins(:geographic_items)
      .where(::GeographicItem.within_radius_of_wkt_sql(wkt, radius ))
  when 'Polygon', 'MultiPolygon'
    ::CollectingEvent
      .joins(:geographic_items)
      .where(::GeographicItem.contained_by_wkt_sql(wkt))
  else
    nil
  end
end

#taxon_name_query_facet ⇒ Object 



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# File 'lib/queries/collecting_event/filter.rb', line 455

def taxon_name_query_facet
  return nil if taxon_name_query.nil?
  s = 'WITH query_tn_ce AS (' + taxon_name_query.all.to_sql + ') ' +
    ::CollectingEvent
    .joins(collection_objects: [:otus])
    .joins('JOIN query_tn_ce as query_tn_ce1 on otus.taxon_name_id = query_tn_ce1.id')
    .to_sql

  ::CollectingEvent.from('(' + s + ') as collecting_events').distinct
end

#use_facet ⇒ Object 



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# File 'lib/queries/collecting_event/filter.rb', line 214

def use_facet
  return nil if (use_min.blank? && use_max.blank?)
  return ::CollectingEvent.none if use_min > use_max

  q = ::CollectingEvent.left_joins(:collection_objects, :field_occurrences)
    .group(collecting_events: [:id])

  if use_min == use_max
    if use_min == 0
      q = ::CollectingEvent.where.missing(:collection_objects, :field_occurrences)
    else
      q = q.having("COUNT(collection_objects.id) + COUNT(field_occurrences.id) = ? ", use_min)
    end
  else
    q = q.having("COUNT(collection_objects.id) + COUNT(field_occurrences.id) BETWEEN ? AND ?", use_min, use_max)
  end

  q = q.select(collecting_events: [:id])
  ::CollectingEvent.from('(' + q.to_sql + ') as collecting_events').distinct
end

#verbatim_label_md5_facet ⇒ Object 



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# File 'lib/queries/collecting_event/filter.rb', line 359

def verbatim_label_md5_facet
  return nil unless md5_verbatim_label && in_labels.present?
  md5 = ::Utilities::Strings.generate_md5(in_labels)

  table[:md5_of_verbatim_label].eq(md5)
end

#wkt_facet ⇒ Object 



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# File 'lib/queries/collecting_event/filter.rb', line 315

def wkt_facet
  return nil if wkt.blank?
  from_wkt(wkt)
end