Module: OtusHelper
- Includes:
- RecordNavigationHelper
- Defined in:
- app/helpers/otus_helper.rb
Instance Method Summary collapse
- #add_aggregate_geo_json(otu, target) ⇒ Object
- #add_distribution_geo_json(otu, target) ⇒ Object
-
#aggregate_geo_json(otu, target, cached_map_type = 'CachedMapItem::WebLevel1') ⇒ Object
TODO: cleanup.
-
#browse_otu_link(object) ⇒ Object
Stub a smart link to browse OTUs.
-
#dwc_gallery_data(otu, dwc_occurrence_id: [], pagination_headers: true) ⇒ Object
Hash { dwc_occurrence_id: [ image1, image2 … ], … }.
- #label_for_otu(otu) ⇒ Object
-
#next_records(otu) ⇒ Array
Of OTUs.
-
#otu_autocomplete_selected_tag(otu) ⇒ String
No HTML inside <input>.
-
#otu_cached_map(otu, target, cached_map_type = 'CachedMapItem::WebLevel1', cache = true, force = false) ⇒ Object
NOT USED Caching the cached map.
- #otu_common_names_label(common_names, term = nil) ⇒ Object
-
#otu_distribution(otu, children = true, cutoff = 200) ⇒ Object
TODO:.
-
#otu_extended_autocomplete_tag(target, otu, common_names, term) ⇒ Object
Used exclusively in /api/v1/otus/autocomplete.
- #otu_key_inventory(otu) ⇒ Object
- #otu_link(otu) ⇒ Object
- #otu_tag(otu) ⇒ Object
- #otu_tag_elements(otu) ⇒ Object
- #otus_link_list_tag(otus) ⇒ Object
- #otus_radial(object) ⇒ Object
- #otus_radial_disambiguate(object) ⇒ Object
- #otus_search_form ⇒ Object
- #parent_records(otu) ⇒ Object
-
#parents_by_nomenclature(otu) ⇒ Object
See also otus#ancestor_otu_ids ?.
-
#previous_records(otu) ⇒ Array
Some OTUs don’t have TaxonName, skip along until we hit one.
- #ranked_otu_table(otus) ⇒ Object
Methods included from RecordNavigationHelper
Instance Method Details
#add_aggregate_geo_json(otu, target) ⇒ Object
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# File 'app/helpers/otus_helper.rb', line 237 def add_aggregate_geo_json(otu, target) h = target if g = aggregate_geo_json(otu, h) t = { 'id' => otu.id, 'type' => 'Otu', 'label' => label_for_otu(otu) } g['properties'] = {'aggregate': true} g['properties']['target'] = t h['features'].push g end h end |
#add_distribution_geo_json(otu, target) ⇒ Object
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# File 'app/helpers/otus_helper.rb', line 308 def add_distribution_geo_json(otu, target) h = target o = otu # internal target t = { 'id' => o.id, 'type' => 'Otu', 'label' => label_for_otu(otu) } o.current_field_occurrences.each do |f| if g = field_occurrence_to_geo_json_feature(f) g['properties']['target'] = t h['features'].push g end end o.current_collection_objects.each do |c| if g = collection_object_to_geo_json_feature(c) g['properties']['target'] = t h['features'].push g end end o.asserted_distributions.each do |a| if g = asserted_distribution_to_geo_json_feature(a) g['properties']['target'] = t h['features'].push g end end o.type_materials.each do |e| if g = type_material_to_geo_json_feature(e) g['properties']['target'] = t h['features'].push g end end h end |
#aggregate_geo_json(otu, target, cached_map_type = 'CachedMapItem::WebLevel1') ⇒ Object
TODO: cleanup
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# File 'app/helpers/otus_helper.rb', line 272 def aggregate_geo_json(otu, target, cached_map_type = 'CachedMapItem::WebLevel1') h = target if gj = otu.cached_map_geo_json(cached_map_type) i = { **gj, # 'type' => gj['type'], # 'Feature', 'properties' => { 'base' => { 'type' => 'Otu', 'id' => otu.id, 'label' => label_for_otu(otu) }, # 'shape' => { # 'type' => cached_map_type, # 'id' => 99999 }, # was nil 'updated_at' => 'foo' # last updated at on CachedMapItem scope, possibly } } if gj.keys.include?('coordinates') i['coordinates'] = gj['coordinates'] # was 'coordinates' TODO: might not work elsif gj.keys.include?('geometries') i['geometries'] = gj['geometries'] # was 'coordinates' TODO: might not work end i else nil end end |
#browse_otu_link(object) ⇒ Object
Stub a smart link to browse OTUs
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# File 'app/helpers/otus_helper.rb', line 98 def browse_otu_link(object) return nil if object.nil? otu = object. content_tag(:div, '', 'data-taxon-name' => object_tag(otu), 'data-redirect' => 'true', 'data-id' => otu.id, 'data-klass' => object.class.base_class.name.to_s, 'data-otu-button' => 'true') end |
#dwc_gallery_data(otu, dwc_occurrence_id: [], pagination_headers: true) ⇒ Object
Returns Hash { dwc_occurrence_id: [ image1, image2 … ], … }.
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# File 'app/helpers/otus_helper.rb', line 376 def dwc_gallery_data(otu, dwc_occurrence_id: [], pagination_headers: true) a = DwcOccurrence.scoped_by_otu(otu) .select(:id, :dwc_occurrence_object_id, :dwc_occurrence_object_type) dwc_ids = [dwc_occurrence_id].flatten.compact.uniq if dwc_ids.any? a = a.where(id: dwc_ids) end a = a.page(params[:page]).per(params[:per]) # Somehwhat of a janky pattern, probably needs to be # moved into Controller. assign_pagination(a) if pagination_headers b = Image.with(dwc_scope: a) .joins('JOIN depictions d on d.image_id = images.id' ) .joins("JOIN dwc_scope on d.depiction_object_id = dwc_scope.dwc_occurrence_object_id AND d.depiction_object_type = 'CollectionObject' AND dwc_scope.dwc_occurrence_object_type = 'CollectionObject'") .select('images.*, dwc_scope.id dwc_id') .distinct r = {} b.find_each do |o| r[o.dwc_id] ||= [] r[o.dwc_id].push o end r end |
#label_for_otu(otu) ⇒ Object
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# File 'app/helpers/otus_helper.rb', line 11 def label_for_otu(otu) return nil if otu.nil? [otu.name, label_for_taxon_name(otu.taxon_name) ].compact.join(': ') end |
#next_records(otu) ⇒ Array
Returns of OTUs.
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# File 'app/helpers/otus_helper.rb', line 115 def next_records(otu) if otu.taxon_name_id o = [] t = otu.taxon_name.next_sibling unless t.nil? while o.empty? break if t.nil? o = t.otus.to_a t = t.next_sibling end end o else super end end |
#otu_autocomplete_selected_tag(otu) ⇒ String
Returns no HTML inside <input>.
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# File 'app/helpers/otus_helper.rb', line 75 def otu_autocomplete_selected_tag(otu) return nil if otu.nil? || (otu.new_record? && !otu.changed?) [otu.name, Utilities::Strings.nil_wrap('[',taxon_name_autocomplete_selected_tag(otu.taxon_name), ']')&.html_safe ].compact.join(' ') end |
#otu_cached_map(otu, target, cached_map_type = 'CachedMapItem::WebLevel1', cache = true, force = false) ⇒ Object
NOT USED Caching the cached map
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# File 'app/helpers/otus_helper.rb', line 258 def otu_cached_map(otu, target, cached_map_type = 'CachedMapItem::WebLevel1', cache = true, force = false) r = nil if force r = aggregate_geo_json(otu, target, cached_map_type) else # Check for map # TODO: extend with synced check if a = CachedMap.where(project_id: sessions_current_project_id).where(otu_id: otu.id, cached_map_type: ) end end end |
#otu_common_names_label(common_names, term = nil) ⇒ Object
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# File 'app/helpers/otus_helper.rb', line 44 def otu_common_names_label(common_names, term = nil) return nil if common_names.nil? || common_names.empty? if term.empty? return common_names.map(&:name).sort.join(', ') end prefix_matches = [] wildcard_matches = [] non_matches = [] term = term.downcase # Regexp.escape turns each space into '\\ '. wildcard_term = Regexp.escape(term).gsub(/(\\ )+/, '.*') common_names.each do |o| name = o.name.downcase if name.start_with?(term) prefix_matches << name elsif name =~ /#{wildcard_term}/ wildcard_matches << name else non_matches << name end end (prefix_matches.sort + wildcard_matches.sort + non_matches.sort).join(', ') end |
#otu_distribution(otu, children = true, cutoff = 200) ⇒ Object
TODO:
* make properties universal
type: 'Model',
id: id,
label: <label>
-
merge origin_otu_id: id to reference coordinate OTUs
target:
type: Otu
label:
id
base: # one level above target (or one level below shape?!)
type:
id:
shape: # Either GeographicArea or Georeference
type
id
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# File 'app/helpers/otus_helper.rb', line 206 def otu_distribution(otu, children = true, cutoff = 200) return {} if otu.nil? otus = if children otu.coordinate_otus_with_children else Otu.coordinate_otus(otu.id) end h = { 'type' => 'FeatureCollection', 'features' => [], 'properties' => { 'target' => { # Top level target 'id' => otu.id, 'label' => label_for_otu(otu), 'type' => 'Otu' } } } if otu.taxon_name && otu.taxon_name.is_protonym? && !otu.taxon_name.is_species_rank? add_aggregate_geo_json(otu, h) else otus.each do |o| add_distribution_geo_json(o, h) end end h end |
#otu_extended_autocomplete_tag(target, otu, common_names, term) ⇒ Object
Used exclusively in /api/v1/otus/autocomplete
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# File 'app/helpers/otus_helper.rb', line 27 def otu_extended_autocomplete_tag(target, otu, common_names, term) if target.kind_of?(Otu) t = otu_tag(target) else # TaxonName a = [ tag.span( full_taxon_name_tag(target).html_safe, class: :otu_tag_taxon_name, title: target.id) ] a.push taxon_name_type_short_tag(target) t = tag.span( a.compact.join(' ').html_safe, class: :otu_tag ) end if common_names.present? && otu.present? && (common_names_label = otu_common_names_label(common_names, term)).present? tag.span( "#{common_names_label} (#{t})".html_safe ) else t end end |
#otu_key_inventory(otu) ⇒ Object
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# File 'app/helpers/otus_helper.rb', line 406 def otu_key_inventory(otu) return { observation_matrices: { scoped: otu.in_scope_observation_matrices.where(is_public: true).select(:id, :name).inject({}){|hsh, m| hsh[m.id] = m.name; hsh;} || {} , in: otu.observation_matrices.where(is_public: true).select(:id, :name).inject({}){|hsh, m| hsh[m.id] = m.name; hsh;} || {}, }, leads: { scoped: otu.leads.where(parent_id: nil, is_public: true).select(:id, :text).inject({}){|hsh, m| hsh[m.id] = m.text; hsh;} || {}, in: Lead.public_root_leads_for_leaf_otus(otu).select(:id, :text).inject({}){|hsh, m| hsh[m.id] = m.text; hsh;} || {}, } } end |
#otu_link(otu) ⇒ Object
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# File 'app/helpers/otus_helper.rb', line 82 def otu_link(otu) return nil if otu.nil? link_to(otu_tag_elements(otu).join(' ').html_safe, otu) end |
#otu_tag(otu) ⇒ Object
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# File 'app/helpers/otus_helper.rb', line 4 def otu_tag(otu) return nil if otu.nil? a = otu_tag_elements(otu) a.push taxon_name_type_short_tag(otu.taxon_name) content_tag(:span, a.compact.join(' ').html_safe, class: :otu_tag) end |
#otu_tag_elements(otu) ⇒ Object
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# File 'app/helpers/otus_helper.rb', line 18 def otu_tag_elements(otu) return nil if otu.nil? [ ( otu.name ? content_tag(:span, otu.name, class: :otu_tag_otu_name, title: otu.id) : nil ), ( otu.taxon_name ? content_tag(:span, full_taxon_name_tag(otu.taxon_name).html_safe, class: :otu_tag_taxon_name, title: otu.taxon_name.id) : nil) ].compact end |
#otus_link_list_tag(otus) ⇒ Object
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# File 'app/helpers/otus_helper.rb', line 91 def otus_link_list_tag(otus) otus.collect { |o| link_to(o.name, o) }.join(',') end |
#otus_radial(object) ⇒ Object
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# File 'app/helpers/otus_helper.rb', line 109 def otus_radial(object) content_tag(:div, '', 'data-global-id' => object.to_global_id.to_s, 'data-otu-radial' => 'true') end |
#otus_radial_disambiguate(object) ⇒ Object
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# File 'app/helpers/otus_helper.rb', line 104 def otus_radial_disambiguate(object) otu = object. content_tag(:div, '', 'data-taxon-name' => object_tag(otu), 'data-redirect' => 'false', 'data-id' => otu.id, 'data-klass' => object.class.base_class.name.to_s, 'data-otu-button' => 'true') end |
#otus_search_form ⇒ Object
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# File 'app/helpers/otus_helper.rb', line 87 def otus_search_form render('/otus/quick_search_form') end |
#parent_records(otu) ⇒ Object
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# File 'app/helpers/otus_helper.rb', line 153 def parent_records(otu) otu.taxon_name&.parent&.otus&.all || [] end |
#parents_by_nomenclature(otu) ⇒ Object
See also otus#ancestor_otu_ids ?
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# File 'app/helpers/otus_helper.rb', line 158 def parents_by_nomenclature(otu) above = [ ] if otu.taxon_name_id TaxonName.ancestors_of(otu.taxon_name) .select('taxon_names.*, taxon_name_hierarchies.generations') .that_is_valid.joins(:otus) .distinct .reorder('taxon_name_hierarchies.generations DESC, taxon_names.cached_valid_taxon_name_id').each do |t| above.push [t.cached, t.otus.to_a] # TODO: to_a vs. pluck end end above end |
#previous_records(otu) ⇒ Array
Some OTUs don’t have TaxonName, skip along until we hit one.
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# File 'app/helpers/otus_helper.rb', line 136 def previous_records(otu) if otu.taxon_name_id o = [] t = otu.taxon_name.previous_sibling unless t.nil? while o.empty? break if t.nil? o = t.otus.to_a t = t.previous_sibling end end o else super end end |
#ranked_otu_table(otus) ⇒ Object
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# File 'app/helpers/otus_helper.rb', line 349 def ranked_otu_table(otus) d = TaxonName.ranked_otus(otu_scope: otus, project_id: sessions_current_project_id) tbl = %w{otu_id order family genus species otu_name taxon_name taxon_name_author_year} output = StringIO.new output.puts ::CSV.generate_line(tbl, col_sep: "\t", encoding: Encoding::UTF_8) d.each do |o| output.puts ::CSV.generate_line( [ o.id, o['order'], o['family'], o['genus'], o['species'], o.name, o.cached, o. ], col_sep: "\t", encoding: Encoding::UTF_8) end output.string end |