feat: patch patient height observation

- This patches patient's height entries

pkg/clinical/application/common/helpers/helpers.go

@@ -265,10 +265,11 @@ func PhysicalPostalAddressesToFHIRAddresses(
 func MaritalStatusEnumToCodeableConcept(val domain.MaritalStatus) *domain.FHIRCodeableConcept {
 	sel := true
 	disp := domain.MaritalStatusDisplay(val)
+	codingCode := scalarutils.Code(val.String())
 	output := &domain.FHIRCodeableConcept{
 		Coding: []*domain.FHIRCoding{
 			{
-				Code:         scalarutils.Code(val.String()),
+				Code:         &codingCode,
 				Display:      disp,
 				UserSelected: &sel,
 			},

pkg/clinical/application/dto/input.go

@@ -34,13 +34,24 @@ type ObservationInput struct {
 	Value       string            `json:"value,omitempty" validate:"required"`
 }
 
+type PatchObservationInput struct {
+	Value string `json:"value,omitempty" validate:"required"`
+}
+
 func (o ObservationInput) Validate() error {
 	v := validator.New()
 	err := v.Struct(o)
 
 	return err
 }
 
+func (o PatchObservationInput) ValidatePatchObservationInput() error {
+	v := validator.New()
+	err := v.Struct(o)
+
+	return err
+}
+
 type PatientInput struct {
 	FirstName   string            `json:"firstName"`
 	LastName    string            `json:"lastName"`

pkg/clinical/domain/complex_types.go

@@ -255,7 +255,7 @@ type FHIRCoding struct {
 	Version *string `json:"version,omitempty"`
 
 	// A symbol in syntax defined by the system. The symbol may be a predefined code or an expression in a syntax defined by the coding system (e.g. post-coordination).
-	Code scalarutils.Code `json:"code,omitempty"`
+	Code *scalarutils.Code `json:"code,omitempty"`
 
 	// A representation of the meaning of the code in the system, following the rules of the system.
 	Display string `json:"display,omitempty"`

pkg/clinical/domain/observation.go

@@ -31,7 +31,7 @@ type FHIRObservation struct {
 	Category []*FHIRCodeableConcept `json:"category,omitempty"`
 
 	// Describes what was observed. Sometimes this is called the observation "name".
-	Code FHIRCodeableConcept `json:"code,omitempty"`
+	Code *FHIRCodeableConcept `json:"code,omitempty"`
 
 	// The patient, or group of patients, location, or device this observation is about and into whose record the observation is placed. If the actual focus of the observation is different from the subject (or a sample of, part, or region of the subject), the `focus` element or the `code` itself specifies the actual focus of the observation.
 	Subject *FHIRReference `json:"subject,omitempty"`
@@ -256,7 +256,7 @@ type FHIRObservationInput struct {
 	Category []*FHIRCodeableConceptInput `json:"category,omitempty"`
 
 	// Describes what was observed. Sometimes this is called the observation "name".
-	Code FHIRCodeableConceptInput `json:"code,omitempty"`
+	Code *FHIRCodeableConceptInput `json:"code,omitempty"`
 
 	// The patient, or group of patients, location, or device this observation is about and into whose record the observation is placed. If the actual focus of the observation is different from the subject (or a sample of, part, or region of the subject), the `focus` element or the `code` itself specifies the actual focus of the observation.
 	Subject *FHIRReferenceInput `json:"subject,omitempty"`
@@ -352,7 +352,7 @@ type FHIRObservationInput struct {
 	Component []*FHIRObservationComponentInput `json:"component,omitempty"`
 
 	// Meta stores more information about the resource
-	Meta FHIRMetaInput `json:"meta,omitempty"`
+	Meta *FHIRMetaInput `json:"meta,omitempty"`
 
 	// Extension is an optional element that provides additional information not captured in the basic resource definition
 	Extension []*FHIRExtension `json:"extension,omitempty"`
@@ -415,3 +415,8 @@ type PagedFHIRObservations struct {
 	PreviousCursor  string
 	TotalCount      int
 }
+
+// FHIRObservationRelayPayload is used to return single instance of Observation
+type FHIRObservationRelayPayload struct {
+	Resource *FHIRObservation `json:"resource,omitempty"`
+}

pkg/clinical/infrastructure/datastore/cloudhealthcare/fhir.go

@@ -1649,3 +1649,36 @@ func (fh StoreImpl) PatchFHIRComposition(_ context.Context, id string, input dom
 
 	return resource, nil
 }
+
+// GetFHIRObservation retrieves instances of FHIRObservation by ID
+func (fh StoreImpl) GetFHIRObservation(_ context.Context, id string) (*domain.FHIRObservationRelayPayload, error) {
+	resource := &domain.FHIRObservation{}
+
+	err := fh.Dataset.GetFHIRResource(observationResourceType, id, resource)
+	if err != nil {
+		return nil, fmt.Errorf("unable to get %s with ID %s, err: %w", observationResourceType, id, err)
+	}
+
+	payload := &domain.FHIRObservationRelayPayload{
+		Resource: resource,
+	}
+
+	return payload, nil
+}
+
+// PatchFHIRObservation is ued to patch an observation resource
+func (fh StoreImpl) PatchFHIRObservation(_ context.Context, id string, input domain.FHIRObservationInput) (*domain.FHIRObservation, error) {
+	payload, err := converterandformatter.StructToMap(input)
+	if err != nil {
+		return nil, fmt.Errorf("unable to turn %s input into a map: %w", observationResourceType, err)
+	}
+
+	resource := &domain.FHIRObservation{}
+
+	err = fh.Dataset.PatchFHIRResource(observationResourceType, id, payload, resource)
+	if err != nil {
+		return nil, fmt.Errorf("unable to patch %s resource: %w", observationResourceType, err)
+	}
+
+	return resource, nil
+}

pkg/clinical/infrastructure/datastore/cloudhealthcare/fhir_unit_test.go

@@ -150,7 +150,7 @@ func TestStoreImpl_CreateFHIRObservation(t *testing.T) {
 			args: args{
 				ctx: context.Background(),
 				input: domain.FHIRObservationInput{
-					Code: domain.FHIRCodeableConceptInput{
+					Code: &domain.FHIRCodeableConceptInput{
 						Text: "Obs",
 					},
 				},
@@ -162,7 +162,7 @@ func TestStoreImpl_CreateFHIRObservation(t *testing.T) {
 			args: args{
 				ctx: context.Background(),
 				input: domain.FHIRObservationInput{
-					Code: domain.FHIRCodeableConceptInput{
+					Code: &domain.FHIRCodeableConceptInput{
 						Text: "Obs",
 					},
 				},
@@ -842,6 +842,8 @@ func fakePatient() (*domain.FHIRPatient, error) {
 	nameUse := domain.HumanNameUseEnumOfficial
 
 	creation := scalarutils.DateTime("2020-09-24T18:02:38.661033Z")
+	typeCode := gofakeit.UUID()
+	maritalStatusCode := scalarutils.Code(domain.MaritalStatusA.String())
 
 	patient := domain.FHIRPatient{
 		ID: &id,
@@ -855,7 +857,7 @@ func fakePatient() (*domain.FHIRPatient, error) {
 						{
 							System:       &system,
 							Version:      &version,
-							Code:         scalarutils.Code(id),
+							Code:         (*scalarutils.Code)(&typeCode),
 							Display:      id,
 							UserSelected: &userSelected,
 						},
@@ -940,7 +942,7 @@ func fakePatient() (*domain.FHIRPatient, error) {
 		MaritalStatus: &domain.FHIRCodeableConcept{
 			Coding: []*domain.FHIRCoding{
 				{
-					Code:         scalarutils.Code(domain.MaritalStatusA.String()),
+					Code:         &maritalStatusCode,
 					Display:      domain.MaritalStatusDisplay(domain.MaritalStatusA),
 					UserSelected: &userSelected,
 				},