handle being able to get additional details about the properties in t…

…he fair data station TTL #2134

lib/seek/fair_data_station/base.rb

@@ -36,7 +36,7 @@ def description
       end
 
       def annotations
-        @_cached_annotations ||= query_annotations
+        @annotations ||= query_annotations
       end
 
       def additional_metadata_annotations
@@ -51,6 +51,30 @@ def find_annotation_value(property)
         end&.[](1)
       end
 
+      # get more details about an annotation from the given property uri
+      def annotation_details(property)
+        result = { 'property_id' => property }
+
+        query = RDF::Query.new do
+          pattern [RDF::Resource.new(property), RDF::RDFS.label, :label]
+          pattern [RDF::Resource.new(property), RDF::Vocab::SCHEMA.description, :description]
+          pattern [RDF::URI.new(property), RDF::Vocab::SCHEMA.valuePattern, :pattern]
+          pattern [RDF::URI.new(property), RDF::Vocab::SCHEMA.valueRequired, :required]
+        end
+        solution = query.execute(graph).first
+        result['label'] = solution[:label].value
+        result['description'] = solution[:description].value
+        result['pattern'] = solution[:pattern].value
+        result['required'] = solution[:required].true?
+        result
+      end
+
+      def additional_metadata_annotation_details
+        additional_metadata_annotations.collect do |annotation|
+          annotation_details(annotation[0])
+        end
+      end
+
       def pp_annotations
         annotations.sort_by { |a| a[0] }.each do |pair|
           pp "#{pair[0]} -> #{pair[1]}"
@@ -115,17 +139,17 @@ def populate_seek_extended_metadata_for_property(extended_metadata_type, data, p
         else
           linked_attributes = extended_metadata_type.attributes_with_linked_extended_metadata_type
           linked_attributes.each do |linked_attribute|
+            result = populate_seek_extended_metadata_for_property(linked_attribute.linked_extended_metadata_type, {},
+                                                                  property_id, value)
+            next if result.empty?
 
-            result = populate_seek_extended_metadata_for_property(linked_attribute.linked_extended_metadata_type, { }, property_id, value)
-            unless result.empty?
-              data[linked_attribute.accessor_name] ||= {}
-              data[linked_attribute.accessor_name].merge!(result)
-              break
-            end
+            data[linked_attribute.accessor_name] ||= {}
+            data[linked_attribute.accessor_name].merge!(result)
+            break
           end
         end
 
-        return data
+        data
       end
 
       def query_annotations

test/unit/fair_data_station/fair_data_station_reader_test.rb

@@ -165,4 +165,32 @@ class FairDataStationReaderTest < ActiveSupport::TestCase
     assert_equal 0, obs_unit.datasets.count
     assert_equal 0, sample.datasets.count
   end
+
+  test 'get annotation details' do
+    path = "#{Rails.root}/test/fixtures/files/fair_data_station/seek-fair-data-station-test-case.ttl"
+    inv = Seek::FairDataStation::Reader.new.parse_graph(path).first
+
+    det = inv.annotation_details('http://fairbydesign.nl/ontology/date_of_birth')
+    assert_equal 'date of birth', det['label']
+    assert_equal 'Date of birth of subject the sample was derived from.', det['description']
+    assert_equal 'http://fairbydesign.nl/ontology/date_of_birth', det['property_id']
+    assert_equal '.+', det['pattern']
+    assert_equal false, det['required']
+
+    det = inv.annotation_details('http://gbol.life/0.1/scientificName')
+    assert_equal 'scientific name', det['label']
+    assert_equal 'Name of the organism', det['description']
+    assert_equal 'http://gbol.life/0.1/scientificName', det['property_id']
+    assert_equal '.*', det['pattern']
+    assert_equal true, det['required']
+  end
+
+  test 'get all additional_metadata_annotation_details' do
+    path = "#{Rails.root}/test/fixtures/files/fair_data_station/seek-fair-data-station-test-case.ttl"
+    inv = Seek::FairDataStation::Reader.new.parse_graph(path).first
+    study = inv.studies.first
+    details = study.additional_metadata_annotation_details
+    assert_equal 3, details.count
+    assert_equal ["end date of study", "experimental site name", "start date of study"], details.collect { |d| d['label'] }.sort
+  end
 end