FI-3401: Fix terminology (#580)

* update value sets yaml

* update expected manifest

lib/inferno/terminology/expected_manifest.yml

@@ -134,7 +134,7 @@
   - http://hl7.org/fhir/document-relationship-type
 - :url: http://hl7.org/fhir/ValueSet/mimetypes
   :file: hl7_org_fhir_ValueSet_mimetypes.msgpack
-  :count: 2575
+  :count: 2578
   :type: bloom
   :code_systems:
   - urn:ietf:bcp:13
@@ -514,7 +514,7 @@
   :code_systems: http://hl7.org/fhir/document-relationship-type
 - :url: urn:ietf:bcp:13
   :file: urn_ietf_bcp_13.msgpack
-  :count: 2575
+  :count: 2578
   :type: bloom
   :code_systems: urn:ietf:bcp:13
 - :url: http://hl7.org/fhir/identifier-use

resources/value_sets.yml

@@ -777,22 +777,6 @@
   :system: http://hl7.org/fhir/ValueSet/specimen-status
   :path: status
   :profile_url: http://hl7.org/fhir/us/core/StructureDefinition/us-core-specimen
-- :type: CodeableConcept
-  :strength: extensible
-  :system: http://cts.nlm.nih.gov/fhir/ValueSet/2.16.840.1.113762.1.4.1240.8
-  :path: value
-  :extensions:
-  - http://hl7.org/fhir/us/core/StructureDefinition/us-core-medication-adherence
-  - medicationAdherence
-  :profile_url: http://hl7.org/fhir/us/core/StructureDefinition/us-core-medicationrequest
-- :type: CodeableConcept
-  :strength: example
-  :system: http://cts.nlm.nih.gov/fhir/ValueSet/2.16.840.1.113762.1.4.1267.11
-  :path: value
-  :extensions:
-  - http://hl7.org/fhir/us/core/StructureDefinition/us-core-medication-adherence
-  - informationSource
-  :profile_url: http://hl7.org/fhir/us/core/StructureDefinition/us-core-medicationrequest
 - :type: code
   :strength: required
   :system: http://hl7.org/fhir/ValueSet/observation-status
@@ -813,32 +797,10 @@
   :system: http://hl7.org/fhir/ValueSet/quantity-comparator
   :path: component.value.comparator
   :profile_url: http://hl7.org/fhir/us/core/StructureDefinition/us-core-average-blood-pressure
-- :type: CodeableConcept
-  :strength: extensible
-  :system: http://terminology.hl7.org/ValueSet/v3-TribalEntityUS
-  :path: value
-  :extensions:
-  - http://hl7.org/fhir/us/core/StructureDefinition/us-core-tribal-affiliation
-  - tribalAffiliation
-  :profile_url: http://hl7.org/fhir/us/core/StructureDefinition/us-core-patient
 - :type: code
   :strength: required
   :system: http://cts.nlm.nih.gov/fhir/ValueSet/2.16.840.1.113762.1.4.1021.24
   :path: value
   :extensions:
   - http://hl7.org/fhir/us/core/StructureDefinition/us-core-birthsex
   :profile_url: http://hl7.org/fhir/us/core/StructureDefinition/us-core-patient
-- :type: code
-  :strength: extensible
-  :system: http://cts.nlm.nih.gov/fhir/ValueSet/2.16.840.1.113762.1.4.1240.3
-  :path: value
-  :extensions:
-  - http://hl7.org/fhir/us/core/StructureDefinition/us-core-sex
-  :profile_url: http://hl7.org/fhir/us/core/StructureDefinition/us-core-patient
-- :type: CodeableConcept
-  :strength: extensible
-  :system: http://cts.nlm.nih.gov/fhir/ValueSet/2.16.840.1.113762.1.4.1021.32
-  :path: value
-  :extensions:
-  - http://hl7.org/fhir/us/core/StructureDefinition/us-core-genderIdentity
-  :profile_url: http://hl7.org/fhir/us/core/StructureDefinition/us-core-patient