us_core_test_kit 0.6.5 → 0.7.1

checksums.yaml

@@ -1,7 +1,7 @@
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data/lib/us_core_test_kit/custom_groups/base_smart_granular_scopes_group.rb

@@ -3,8 +3,10 @@ require 'smart_app_launch_test_kit'
 require_relative './smart_ehr_launch_stu2'
 require_relative './smart_scopes_constants'
 require_relative './smart_standalone_launch_stu2_group'
-require_relative '../granular_scope_checker'
+require_relative '../granular_scope_search_test'
+require_relative '../granular_scope_read_test'
 require_relative '../us_core_options'
+require_relative './granted_granular_scopes_test'
 
 module USCoreTestKit
   class BaseSmartGranularScopesGroup < Inferno::TestGroup
@@ -52,8 +54,7 @@ module USCoreTestKit
             smart_credentials: {
               name: :granular_scopes_1_credentials
             }
-          }
-        )
+          }        )
         group from: :us_core_smart_standalone_launch_stu2,
               optional: true,
               config: {
@@ -62,7 +63,16 @@ module USCoreTestKit
                     name: :granular_scopes_1_credentials
                   }
                 }
-              }
+              } do
+          groups[1].test from: :us_core_granted_granular_scopes,
+                         config: {
+                           inputs: {
+                             received_scopes: {
+                               name: :standalone_received_scopes
+                             }
+                           }
+                         }
+        end
         group from: :us_core_smart_ehr_launch_stu2,
               optional: true,
               config: {
@@ -71,9 +81,16 @@ module USCoreTestKit
                     name: :granular_scopes_1_credentials
                   }
                 }
-              }
-
-        # TODO: verify that all required scopes were requested and received
+              } do
+          groups[1].test from: :us_core_granted_granular_scopes,
+                         config: {
+                           inputs: {
+                             received_scopes: {
+                               name: :ehr_received_scopes
+                             }
+                           }
+                         }
+        end
       end
     end
 
@@ -103,7 +120,16 @@ module USCoreTestKit
                     name: :granular_scopes_2_credentials
                   }
                 }
-              }
+              } do
+          groups[1].test from: :us_core_granted_granular_scopes,
+                         config: {
+                           inputs: {
+                             received_scopes: {
+                               name: :standalone_received_scopes
+                             }
+                           }
+                         }
+        end
 
 
         group from: :us_core_smart_ehr_launch_stu2,
@@ -114,10 +140,16 @@ module USCoreTestKit
                     name: :granular_scopes_2_credentials
                   }
                 }
-              }
-
-
-        # TODO: verify that all required scopes were requested and received
+              } do
+          groups[1].test from: :us_core_granted_granular_scopes,
+                         config: {
+                           inputs: {
+                             received_scopes: {
+                               name: :ehr_received_scopes
+                             }
+                           }
+                         }
+        end
       end
     end
   end

data/lib/us_core_test_kit/custom_groups/granted_granular_scopes_test.rb

@@ -0,0 +1,61 @@
+module USCoreTestKit
+  class GrantedGranularScopesTest < Inferno::Test
+    id :us_core_granted_granular_scopes
+    title 'Required granular scopes were granted'
+
+    description %()
+
+    input :received_scopes
+
+    run do
+      required_granular_scopes =
+        config
+          .options[:required_scopes]
+          .map { |scope| scope[scope.index('/') + 1, scope.length] }
+
+      received_granular_scopes =
+        received_scopes
+          .split(' ')
+          .select { |scope| scope.include? '?' }
+          .map { |scope| scope[scope.index('/') + 1, scope.length] }
+
+      missing_scopes = required_granular_scopes - received_granular_scopes
+
+      wrapped_missing_scopes = missing_scopes.map { |scope| "`#{scope}`" }
+
+      assert missing_scopes.empty?,
+             "The following granular scopes were not granted: #{wrapped_missing_scopes.to_sentence}"
+
+      granular_scope_resource_types =
+        required_granular_scopes
+          .map { |scope| scope.split('.').first }
+          .uniq
+
+      received_resource_level_scopes =
+        received_scopes
+          .split(' ')
+          .reject { |scope| scope.include? '?' }
+          .select { |scope| scope.match? %r{\A(user|patient|system|\*)/.+\..+} }
+          .map { |scope| scope[scope.index('/') + 1, scope.length] }
+          .select { |scope| granular_scope_resource_types.include? scope[0, scope.index('.')] }
+
+      wrapped_resource_scopes = received_resource_level_scopes.map { |scope| "`#{scope}`" }
+
+      assert received_resource_level_scopes.empty?,
+             'Can not verify the behavior of granular scopes because the following resource-level scopes were ' \
+             "granted: #{wrapped_resource_scopes.to_sentence}"
+
+      received_wildcard_scopes =
+        received_scopes
+          .split(' ')
+          .select { |scope| scope.match? %r{\A(user|patient|system|\*)/\*} }
+
+      wrapped_wildcard_scopes = received_wildcard_scopes.map { |scope| "`#{scope}`" }
+
+      assert received_wildcard_scopes.empty?,
+             'Can not verify the behavior of granular scopes because the following wildcard scopes were ' \
+             "granted: #{wrapped_wildcard_scopes.to_sentence}"
+
+    end
+  end
+end

data/lib/us_core_test_kit/custom_groups/screening_assessment_category_test.rb

@@ -0,0 +1,75 @@
+require_relative '../search_test'
+
+module USCoreTestKit
+  class ScreeningAssessmentCategoryTest < Inferno::Test
+    include SearchTest
+
+    id :us_core_screening_assessment_category
+    title 'Server demonstrates support for the required Condition and Observation categories.'
+
+    input :patient_ids,
+          title: 'Patient IDs',
+          description: 'Comma separated list of patient IDs that in sum contain all MUST SUPPORT elements'
+
+    # Disable tagging requests since this test doesn't have properties defined.
+    # TODO: investigate whether we need to tag these for granular scope
+    # checking.
+    def tags(_params)
+      nil
+    end
+
+    # rubocop:disable Metrics/CyclomaticComplexity
+    def category_found(resource_type:, patient_id:, category_search_values:, missing_categories:)
+      search_params = { patient: patient_id }
+
+      category_search_values.each do |category_search_value|
+        search_params[:category] = category_search_value
+        search_and_check_response(search_params, resource_type)
+
+        resources = fetch_all_bundled_resources(resource_type:)
+          .select { |resource| resource.resourceType == resource_type }
+
+        resources.each do |resource|
+          resource.category&.each do |category|
+            category.coding&.each do |coding|
+              missing_categories.delete(coding.code)
+            end
+          end
+
+          break if missing_categories.empty?
+        end
+
+        break if missing_categories.empty?
+      end
+    end
+    # rubocop:enable Metrics/CyclomaticComplexity
+
+    run do
+      missing_obs_categories = config.options[:observation_screening_assessment_categories].dup
+      missing_cond_categories = config.options[:condition_screening_assessment_categories].dup
+
+      patient_id_list.each do |patient_id|
+        unless missing_cond_categories.empty?
+          category_found(resource_type: 'Condition',
+                         patient_id:,
+                         category_search_values: ['health-concern', 'problem-list-item'],
+                         missing_categories: missing_cond_categories)
+        end
+
+        next if missing_obs_categories.empty?
+
+        category_found(resource_type: 'Observation',
+                       patient_id:,
+                       category_search_values: ['survey'],
+                       missing_categories: missing_obs_categories)
+      end
+
+      pass if missing_cond_categories.empty? && missing_obs_categories.empty?
+
+      messages = []
+      messages << "Observation categories: #{missing_obs_categories.join(', ')}" unless missing_obs_categories.empty?
+      messages << "Condition categories: #{missing_cond_categories.join(', ')}" unless missing_cond_categories.empty?
+      skip "Could not find these #{messages.join(' and ')}."
+    end
+  end
+end

data/lib/us_core_test_kit/custom_groups/smart_scopes_constants.rb

@@ -5,9 +5,13 @@ module USCoreTestKit
     SMART_GRANULAR_SCOPES_GROUP1 = {
       'v610' => [
           'patient/Condition.rs?category=http://terminology.hl7.org/CodeSystem/condition-category|encounter-diagnosis',
+          'patient/Condition.rs?category=http://hl7.org/fhir/us/core/CodeSystem/condition-category|health-concern',
+          'patient/Condition.rs?category=http://terminology.hl7.org/CodeSystem/condition-category|problem-list-item',
           'patient/Observation.rs?category=http://terminology.hl7.org/CodeSystem/observation-category|laboratory',
           'patient/Observation.rs?category=http://terminology.hl7.org/CodeSystem/observation-category|social-history',
-          'patient/Observation.rs?category=http://terminology.hl7.org/CodeSystem/observation-category|procedure'
+          'patient/Observation.rs?category=http://terminology.hl7.org/CodeSystem/observation-category|vital-signs',
+          'patient/Observation.rs?category=http://terminology.hl7.org/CodeSystem/observation-category|survey',
+          'patient/Observation.rs?category=http://hl7.org/fhir/us/core/CodeSystem/us-core-category|sdoh'
         ].map(&:freeze).freeze,
       'v700_ballot' => [
           'patient/Condition.rs?category=http://terminology.hl7.org/CodeSystem/condition-category|encounter-diagnosis',
@@ -24,13 +28,6 @@ module USCoreTestKit
     }.freeze
 
     SMART_GRANULAR_SCOPES_GROUP2 = {
-      'v610' => [
-          'patient/Condition.rs?category=http://hl7.org/fhir/us/core/CodeSystem/condition-category|health-concern',
-          'patient/Condition.rs?category=http://terminology.hl7.org/CodeSystem/condition-category|problem-list-item',
-          'patient/Observation.rs?category=http://terminology.hl7.org/CodeSystem/observation-category|vital-signs',
-          'patient.Observation.rs?category=http://terminology.hl7.org/CodeSystem/observation-category|survey',
-          'patient.Observation.rs?category=http://hl7.org/fhir/us/core/CodeSystem/us-core-category|sdoh'
-      ].map(&:freeze).freeze,
       'v700_ballot' => [
           'patient/Condition.rs?category=http://terminology.hl7.org/CodeSystem/condition-category|problem-list-item',
           'patient/DiagnosticReport.rs?category=http://loinc.org|LP7839-6',

data/lib/us_core_test_kit/custom_groups/v6.1.0/screening_assessment_group.rb

@@ -0,0 +1,45 @@
+require_relative '../screening_assessment_category_test'
+
+module USCoreTestKit
+  module USCoreV610
+    class ScreeningAssessmentGroup < Inferno::TestGroup
+      id :us_core_v610_screening_assessment
+      title 'Screening Assessments Guidance'
+      short_description 'Verify Condition and Observation resources support the ' \
+                        'US Core Screening And Assessments Guidance.'
+      description %(
+        The #{title} Sequence tests Condition and Observation
+        resources associated with the provided patient. The resources returned
+        will be checked for consistency against the [US Core Screening And Assessments
+        Guidance](https://hl7.org/fhir/us/core/STU6.1/screening-and-assessments.html)
+        and FHIR JIRA ticket [FHIR-45319](https://jira.hl7.org/browse/FHIR-45319)
+
+        In this set of tests, Inferno serves as a FHIR client that attempts to
+        access the different types of Screening and Assessments specified in the guidance.
+        The provided patient needs to have the following four common Screening and Assessements
+        as Observation categories:
+
+        * SDOH Assessment (sdoh)
+        * Functional Status (functional-status)
+        * Disability Status (disability-status)
+        * Mental/Cognitive Status (cognitive-status)
+
+        The provided patient also needs to have the following common Screening and Assessment
+        as Condition category:
+
+        * SDOH Assessment (sdoh)
+      )
+      run_as_group
+
+      test from: :us_core_screening_assessment_category do
+        config(
+          options: {
+            condition_screening_assessment_categories: ['sdoh'].freeze,
+            observation_screening_assessment_categories: ['sdoh', 'functional-status', 'disability-status',
+                                                          'cognitive-status'].freeze
+          }
+        )
+      end
+    end
+  end
+end

data/lib/us_core_test_kit/custom_groups/v6.1.0/smart_granular_scopes_group.rb

@@ -1,12 +1,33 @@
 require_relative '../base_smart_granular_scopes_group'
+require_relative '../smart_scopes_constants'
+require_relative '../granted_granular_scopes_test'
 require_relative '../../generated/v6.1.0/granular_scopes1_group'
-require_relative '../../generated/v6.1.0/granular_scopes2_group'
 
 module USCoreTestKit
   module USCoreV610
-    class SmartGranularScopesGroup < BaseSmartGranularScopesGroup
-      id :us_core_v610_smart_granular_scopes
+    class SmartGranularScopesGroup < Inferno::TestGroup
+      include SmartScopesConstants
       title 'US Core SMART Granular Scopes'
+      id :us_core_v610_smart_granular_scopes
+
+      description <<~DESCRIPTION
+        These tests verify that servers honor [SMART App Launch granular
+        scopes](http://hl7.org/fhir/smart-app-launch/STU2/scopes-and-launch-context.html#finer-grained-resource-constraints-using-search-parameters).
+        Support for these scopes is [required in US Core
+        7](http://hl7.org/fhir/us/core/2024Jan/scopes.html#us-core-scopes).
+
+        Prior to running these tests, first run the US Core FHIR API tests using
+        resource-level scopes. This group includes a SMART App Launch followed by
+        FHIR API tests. The app launches require that a granular scopes be
+        granted. The FHIR API tests then repeat all of the queries from the
+        original FHIR API tests that were run using resource-level scopes, and
+        verify that only resources matching the granted granular scopes are
+        returned.
+      DESCRIPTION
+
+      def self.default_group_scopes(version)
+        [DEFAULT_SCOPES, *SMART_GRANULAR_SCOPES_GROUP1[version]].join(' ')
+      end
 
       def self.scopes_string(scopes)
         scopes
@@ -15,59 +36,91 @@ module USCoreTestKit
           .join("\n")
       end
 
-      groups
-        .first
-        .description %(
-These tests perform a SMART app launch to receive the following granular scopes:
-
-#{scopes_string(SMART_GRANULAR_SCOPES_GROUP1['v610'])}
-
-Then all of the searches which have been performed in the US Core FHIR API tests
-are repeated to verify that the results have been filtered according to the
-above scopes.
-        )
-
-      groups
-        .first
-        .config(
-          inputs: {
-            requested_scopes: {
-              name: :requested_scopes_group1,
-              default: groups.first.default_group_scopes('v610')
-            }
+      config(
+        inputs: {
+          url: {
+            locked: true
+          },
+          requested_scopes: {
+            name: :requested_scopes_group1,
+            default: default_group_scopes('v610')
           }
-        )
+        }
+      )
+
+      group do
+        title 'SMART App Launch w/Granular Scopes'
 
-      groups
-        .first
-        .group from: :us_core_v610_smart_granular_scopes_1
+        def self.scopes_string(scopes)
+          scopes
+            .map { |scope| scope.delete_prefix 'patient/' }
+            .map { |scope| "* `#{scope}`" }
+            .join("\n")
+        end
 
-      groups
-        .last
-        .description %(
+        description %(
 These tests perform a SMART app launch to receive the following granular scopes:
 
-#{scopes_string(SMART_GRANULAR_SCOPES_GROUP2['v610'])}
+#{scopes_string(SMART_GRANULAR_SCOPES_GROUP1['v610'])}
 
 Then all of the searches which have been performed in the US Core FHIR API tests
 are repeated to verify that the results have been filtered according to the
 above scopes.
         )
 
-      groups
-        .last
-        .config(
-          inputs: {
-            requested_scopes: {
-              name: :requested_scopes_group2,
-              default: groups.last.default_group_scopes('v610')
+        config(
+          outputs: {
+            smart_credentials: {
+              name: :granular_scopes_1_credentials
             }
           }
         )
+        group from: :us_core_smart_standalone_launch_stu2,
+              optional: true,
+              config: {
+                inputs: {
+                  smart_credentials: {
+                    name: :granular_scopes_1_credentials
+                  }
+                }
+              } do
+          groups[1].test from: :us_core_granted_granular_scopes,
+                         config: {
+                           inputs: {
+                             received_scopes: {
+                               name: :standalone_received_scopes
+                             }
+                           },
+                           options: {
+                             required_scopes: SMART_GRANULAR_SCOPES_GROUP1['v610']
+                           }
+                         }
+        end
+        group from: :us_core_smart_ehr_launch_stu2,
+              optional: true,
+              config: {
+                inputs: {
+                  smart_credentials: {
+                    name: :granular_scopes_1_credentials
+                  }
+                }
+              } do
+          groups[1].test from: :us_core_granted_granular_scopes,
+                         config: {
+                           inputs: {
+                             received_scopes: {
+                               name: :ehr_received_scopes
+                             }
+                           },
+                           options: {
+                             required_scopes: SMART_GRANULAR_SCOPES_GROUP1['v610']
+                           }
+                         }
+        end
+      end
 
-      groups
-        .last
-        .group  from: :us_core_v610_smart_granular_scopes_2
+      group from: :us_core_v610_smart_granular_scopes_1,
+            title: 'US Core FHIR API w/Granular Scopes'
     end
   end
 end

data/lib/us_core_test_kit/custom_groups/v7.0.0-ballot/screening_assessment_group.rb

@@ -0,0 +1,48 @@
+require_relative '../screening_assessment_category_test'
+
+module USCoreTestKit
+  module USCoreV700_BALLOT
+    class ScreeningAssessmentGroup < Inferno::TestGroup
+      id :us_core_v700_ballot_screening_assessment
+      title 'Screening Assessments Guidance'
+      short_description 'Verify Condition and Observation resources support the ' \
+                        'US Core Screening And Assessments Guidance.'
+      description %(
+        The #{title} Sequence tests Condition and Observation
+        resources associated with the provided patient. The resources returned
+        will be checked for consistency against the [US Core Screening And Assessments
+        Guidance](https://hl7.org/fhir/us/core/STU7/screening-and-assessments.html)
+        and FHIR JIRA ticket [FHIR-46052](https://jira.hl7.org/browse/FHIR-46052)
+
+        In this set of tests, Inferno serves as a FHIR client that attempts to
+        access the different types of Screening and Assessments specified in the guidance.
+        The provided patient needs to have the following four common Screening and Assessements
+        as Observation categories:
+
+        * SDOH Assessment (sdoh)
+        * Functional Status (functional-status)
+        * Disability Status (disability-status)
+        * Mental/Cognitive Status (cognitive-status)
+        * Physical Activity (activity)
+        * Alcohol Use (social-history)
+        * Substance Use (social-history)
+
+        The provided patient also needs to have the following common Screening and Assessment
+        as Condition category:
+
+        * SDOH Assessment (sdoh)
+      )
+      run_as_group
+
+      test from: :us_core_screening_assessment_category do
+        config(
+          options: {
+            condition_screening_assessment_categories: ['sdoh'].freeze,
+            observation_screening_assessment_categories: ['sdoh', 'functional-status', 'disability-status',
+                                                          'cognitive-status', 'activity', 'social-history'].freeze
+          }
+        )
+      end
+    end
+  end
+end

data/lib/us_core_test_kit/custom_groups/v7.0.0-ballot/smart_granular_scopes_group.rb

@@ -43,6 +43,9 @@ above scopes.
               name: :requested_scopes_group1,
               default: groups.first.default_group_scopes('v700_ballot')
             }
+          },
+          options: {
+            required_scopes: SMART_GRANULAR_SCOPES_GROUP1['v700_ballot']
           }
         )
 
@@ -70,6 +73,9 @@ above scopes.
               name: :requested_scopes_group2,
               default: groups.last.default_group_scopes('v700_ballot')
             }
+          },
+          options: {
+            required_scopes: SMART_GRANULAR_SCOPES_GROUP2['v700_ballot']
           }
         )
 

data/lib/us_core_test_kit/fhir_resource_navigation.rb

@@ -1,6 +1,9 @@
+require_relative './primitive_type'
+
 module USCoreTestKit
   module FHIRResourceNavigation
     DAR_EXTENSION_URL = 'http://hl7.org/fhir/StructureDefinition/data-absent-reason'.freeze
+    PRIMITIVE_DATA_TYPES = FHIR::PRIMITIVES.keys
 
     def resolve_path(elements, path)
       elements = Array.wrap(elements)
@@ -64,12 +67,24 @@ module USCoreTestKit
         slice = find_slice_via_discriminator(element, property)
         slice
       else
-        element.send(property)
+        value = element.send(property)
+        primitive_value = get_primitive_type_value(element, property, value)
+        primitive_value.present? ? primitive_value : value
       end
     rescue NoMethodError
       nil
     end
 
+    def get_primitive_type_value(element, property, value)
+      source_value = element.source_hash["_#{property}"]
+
+      return nil unless source_value.present?
+
+      primitive_value = USCoreTestKit::PrimitiveType.new(source_value)
+      primitive_value.value = value
+      primitive_value
+    end
+
     def find_slice_via_discriminator(element, property)
       element_name = property.to_s.split(':')[0].gsub(/^class$/, 'local_class')
       slice_name = property.to_s.split(':')[1].gsub(/^class$/, 'local_class')

data/lib/us_core_test_kit/generated/v3.1.1/metadata.yml

@@ -6636,10 +6636,13 @@
   :must_supports:
     :extensions:
     - :id: Patient.extension:race
+      :path: extension
       :url: http://hl7.org/fhir/us/core/StructureDefinition/us-core-race
     - :id: Patient.extension:ethnicity
+      :path: extension
       :url: http://hl7.org/fhir/us/core/StructureDefinition/us-core-ethnicity
     - :id: Patient.extension:birthsex
+      :path: extension
       :url: http://hl7.org/fhir/us/core/StructureDefinition/us-core-birthsex
     :slices: []
     :elements:

data/lib/us_core_test_kit/generated/v3.1.1/patient/metadata.yml

@@ -148,10 +148,13 @@
 :must_supports:
   :extensions:
   - :id: Patient.extension:race
+    :path: extension
     :url: http://hl7.org/fhir/us/core/StructureDefinition/us-core-race
   - :id: Patient.extension:ethnicity
+    :path: extension
     :url: http://hl7.org/fhir/us/core/StructureDefinition/us-core-ethnicity
   - :id: Patient.extension:birthsex
+    :path: extension
     :url: http://hl7.org/fhir/us/core/StructureDefinition/us-core-birthsex
   :slices: []
   :elements:

data/lib/us_core_test_kit/generated/v3.1.1/us_core_test_suite.rb

@@ -65,6 +65,7 @@ module USCoreTestKit
         /Provenance.agent\[\d*\]: Rule provenance-1/, #Invalid invariant in US Core v5.0.1
         %r{Unknown Code System 'http://hl7.org/fhir/us/core/CodeSystem/us-core-tags'}, # Validator has an issue with this US Core 5 code system in US Core 6 resource
         %r{URL value 'http://hl7.org/fhir/us/core/CodeSystem/us-core-tags' does not resolve}, # Validator has an issue with this US Core 5 code system in US Core 6 resource
+        /\A\S+: \S+: URL value '.*' does not resolve/,
         %r{Observation.component\[\d+\].value.ofType\(Quantity\): The code provided \(http://unitsofmeasure.org#L/min\) was not found in the value set 'Vital Signs Units'} # Known issue with the Pulse Oximetry Profile
       ].freeze
 
@@ -76,8 +77,10 @@ module USCoreTestKit
           end
       end
 
-      validator do
-        url ENV.fetch('V311_VALIDATOR_URL', 'http://validator_service:4567')
+      id :us_core_v311
+
+      fhir_resource_validator do
+        igs 'hl7.fhir.us.core#3.1.1'
         message_filters = VALIDATION_MESSAGE_FILTERS + VERSION_SPECIFIC_MESSAGE_FILTERS
 
         exclude_message do |message|
@@ -90,8 +93,6 @@ module USCoreTestKit
         end
       end
 
-      id :us_core_v311
-
       input :url,
         title: 'FHIR Endpoint',
         description: 'URL of the FHIR endpoint'

data/lib/us_core_test_kit/generated/v4.0.0/metadata.yml

@@ -7260,12 +7260,15 @@
   :must_supports:
     :extensions:
     - :id: Patient.extension:race
+      :path: extension
       :url: http://hl7.org/fhir/us/core/StructureDefinition/us-core-race
       :uscdi_only: true
     - :id: Patient.extension:ethnicity
+      :path: extension
       :url: http://hl7.org/fhir/us/core/StructureDefinition/us-core-ethnicity
       :uscdi_only: true
     - :id: Patient.extension:birthsex
+      :path: extension
       :url: http://hl7.org/fhir/us/core/StructureDefinition/us-core-birthsex
       :uscdi_only: true
     :slices: []