Module: CancerPathologyDataSharingTestKit::FHIRResourceNavigation

Included in:
MustSupportTest
Defined in:
lib/cancer_pathology_data_sharing_test_kit/fhir_resource_navigation.rb

Constant Summary collapse

DAR_EXTENSION_URL = 
'http://hl7.org/fhir/StructureDefinition/data-absent-reason'.freeze
PRIMITIVE_DATA_TYPES = 
FHIR::PRIMITIVES.keys

Instance Method Summary collapse

Instance Method Details

#find_a_value_at(element, path, include_dar: false, &block) ⇒ Object

rubocop:disable Metrics/CyclomaticComplexity



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# File 'lib/cancer_pathology_data_sharing_test_kit/fhir_resource_navigation.rb', line 22

def find_a_value_at(element, path, include_dar: false, &block) # rubocop:disable Metrics/CyclomaticComplexity
  return nil if element.nil?

  elements = Array.wrap(element)
  if path.empty?
    unless include_dar
      elements = elements.reject do |el|
        el.respond_to?(:extension) && el.extension.any? { |ext| ext.url == DAR_EXTENSION_URL }
      end
    end

    return elements.find(&block) if block_given?

    return elements.first
  end

  path_segments = path.split(/(?<!hl7)\./)

  segment = path_segments
    .shift
    .delete_suffix('[x]')
    .gsub(/^class$/, 'local_class')
    .gsub(/^method$/, 'local_method')
    .gsub('[x]:', ':')
    .to_sym
  no_elements_present =
    elements.none? do |element| # rubocop:disable Lint/ShadowingOuterLocalVariable
      child = get_next_value(element, segment)
      child.present? || child == false
    end
  return nil if no_elements_present

  remaining_path = path_segments.join('.')
  elements.each do |element| # rubocop:disable Lint/ShadowingOuterLocalVariable
    child = get_next_value(element, segment)
    element_found =
      if block_given?
        find_a_value_at(child, remaining_path, include_dar: include_dar, &block)
      else
        find_a_value_at(child, remaining_path, include_dar: include_dar)
      end
    return element_found if element_found.present? || element_found == false
  end

  nil
end

#find_slice_via_discriminator(element, property) ⇒ Object

rubocop:disable Metrics/CyclomaticComplexity



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# File 'lib/cancer_pathology_data_sharing_test_kit/fhir_resource_navigation.rb', line 95

def find_slice_via_discriminator(element, property) # rubocop:disable Metrics/CyclomaticComplexity
  element_name = property.to_s.split(':')[0].gsub(/^class$/, 'local_class').gsub(/^method$/, 'local_method')
  slice_name = property.to_s.split(':')[1].gsub(/^class$/, 'local_class').gsub(/^method$/, 'local_method')
  if metadata.present?
    slice_by_name = metadata.must_supports[:slices].find { |slice| slice[:slice_name] == slice_name }
    discriminator = slice_by_name[:discriminator]
    slices = Array.wrap(element.send(element_name))
    slices.find do |slice|
      case discriminator[:type]
      when 'patternCodeableConcept'
        slice_value = discriminator[:path].present? ? slice.send(discriminator[:path].to_s)&.coding : slice.coding
        slice_value&.any? { |coding| coding.code == discriminator[:code] && coding.system == discriminator[:system] }
      when 'patternCoding'
        slice_value = discriminator[:path].present? ? slice.send(discriminator[:path]) : slice
        slice_value&.code == discriminator[:code] && slice_value&.system == discriminator[:system]
      when 'patternIdentifier'
        slice.identifier.system == discriminator[:system]
      when 'value'
        values = discriminator[:values].map { |value| value.merge(path: value[:path].split('.')) }
        verify_slice_by_values(slice, values)
      when 'type'
        case discriminator[:code]
        when 'Date'
          begin
            Date.parse(slice)
          rescue ArgumentError # rubocop:disable Metrics/BlockNesting
            false
          end
        when 'DateTime'
          begin
            DateTime.parse(slice)
          rescue ArgumentError # rubocop:disable Metrics/BlockNesting
            false
          end
        when 'String'
          slice.is_a? String
        else
          if slice.is_a? FHIR::Bundle::Entry # rubocop:disable Metrics/BlockNesting
            slice.resource.resourceType == discriminator[:code]
          else
            slice.is_a? FHIR.const_get(discriminator[:code])
          end
        end
      when 'requiredBinding'
        discriminator[:path].present? ? slice.send(discriminator[:path].to_s).coding : slice.coding
        slice_value { |coding| discriminator[:values].include?(coding.code) }
      end
    end
  else # rubocop:disable Style/EmptyElse
    # TODO: Error handling for if this file doesn't have access to metadata for some reason (begin/rescue with StandardError?)
  end
end

#get_next_value(element, property) ⇒ Object 



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# File 'lib/cancer_pathology_data_sharing_test_kit/fhir_resource_navigation.rb', line 69

def get_next_value(element, property)
  extension_url = property[/(?<=where\(url=').*(?='\))/]
  if extension_url.present?
    element.url == extension_url ? element : nil
  elsif property.to_s.include?(':') && !property.to_s.include?('url')
    find_slice_via_discriminator(element, property)

  else
    value = element.send(property)
    primitive_value = get_primitive_type_value(element, property, value)
    primitive_value.present? ? primitive_value : value
  end
rescue NoMethodError
  nil
end

#get_primitive_type_value(element, property, value) ⇒ Object 



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# File 'lib/cancer_pathology_data_sharing_test_kit/fhir_resource_navigation.rb', line 85

def get_primitive_type_value(element, property, value)
  source_value = element.source_hash["_#{property}"]

  return nil unless source_value.present?

  primitive_value = CancerPathologyDataSharingTestKit::PrimitiveType.new(source_value)
  primitive_value.value = value
  primitive_value
end

#resolve_path(elements, path) ⇒ Object 



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# File 'lib/cancer_pathology_data_sharing_test_kit/fhir_resource_navigation.rb', line 8

def resolve_path(elements, path)
  elements = Array.wrap(elements)
  return elements if path.blank?

  paths = path.split(/(?<!hl7)\./)
  segment = paths.first
  remaining_path = paths.drop(1).join('.')

  elements.flat_map do |element|
    child = get_next_value(element, segment)
    resolve_path(child, remaining_path)
  end.compact
end

#verify_slice_by_values(element, value_definitions) ⇒ Object

rubocop:disable Metrics/CyclomaticComplexity



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# File 'lib/cancer_pathology_data_sharing_test_kit/fhir_resource_navigation.rb', line 148

def verify_slice_by_values(element, value_definitions) # rubocop:disable Metrics/CyclomaticComplexity
  path_prefixes = value_definitions.map { |value_definition| value_definition[:path].first }.uniq
  path_prefixes.all? do |path_prefix|
    value_definitions_for_path =
      value_definitions
        .select { |value_definition| value_definition[:path].first == path_prefix }
        .each { |value_definition| value_definition[:path].shift }
    find_a_value_at(element, path_prefix) do |el_found|
      child_element_value_definitions, current_element_value_definitions =
        value_definitions_for_path.partition { |value_definition| value_definition[:path].present? }

      current_element_values_match =
        current_element_value_definitions
          .all? { |value_definition| value_definition[:value] == el_found }

      child_element_values_match =
        if child_element_value_definitions.present?
          verify_slice_by_values(el_found, child_element_value_definitions)
        else
          true
        end
      current_element_values_match && child_element_values_match
    end
  end
end