public async Task GivenFhirServer_WhenGroupDataWithNoMemberPatientIdIsExported_ThenNoDataIsExported()
{
// NOTE: Azure Storage Emulator is required to run these tests locally.
// Add data for test
string groupId = await CreateGroupWithoutPatientIds();
// Trigger export request and check for export status
Uri contentLocation = await _testFhirClient.ExportAsync($"Group/{groupId}/");
IList <Uri> blobUris = await ExportTestHelper.CheckExportStatus(_testFhirClient, contentLocation);
Assert.Empty(blobUris);
async Task <string> CreateGroupWithoutPatientIds()
{
var group = new FhirGroup()
{
Type = FhirGroup.GroupType.Person,
Actual = true,
};
var groupResponse = await _testFhirClient.CreateAsync(group);
return(groupResponse.Resource.Id);
}
}
public async Task GivenAValidConfigurationWithETag_WhenExportingGroupAnonymizedData_ResourceShouldBeAnonymized()
{
_metricHandler?.ResetCount();
var patientToCreate = Samples.GetDefaultPatient().ToPoco <Patient>();
var dateTime = DateTimeOffset.UtcNow;
patientToCreate.Id = Guid.NewGuid().ToString();
var patientReponse = await _testFhirClient.UpdateAsync(patientToCreate);
var patientId = patientReponse.Resource.Id;
var group = new FhirGroup()
{
Type = FhirGroup.GroupType.Person,
Actual = true,
Id = Guid.NewGuid().ToString(),
Member = new List <FhirGroup.MemberComponent>()
{
new FhirGroup.MemberComponent()
{
Entity = new ResourceReference($"{KnownResourceTypes.Patient}/{patientId}"),
},
},
};
var groupReponse = await _testFhirClient.UpdateAsync(group);
var groupId = groupReponse.Resource.Id;
(string fileName, string etag) = await UploadConfigurationAsync(RedactResourceIdAnonymizationConfiguration);
string containerName = Guid.NewGuid().ToString("N");
Uri contentLocation = await _testFhirClient.AnonymizedExportAsync(fileName, dateTime, containerName, etag, $"Group/{groupId}/");
HttpResponseMessage response = await WaitForCompleteAsync(contentLocation);
IList <Uri> blobUris = await CheckExportStatus(response);
IEnumerable <string> dataFromExport = await DownloadBlobAndParse(blobUris);
FhirJsonParser parser = new FhirJsonParser();
foreach (string content in dataFromExport)
{
Resource result = parser.Parse <Resource>(content);
Assert.Contains(result.Meta.Security, c => "REDACTED".Equals(c.Code));
}
Assert.Equal(2, dataFromExport.Count());
// Only check metric for local tests
if (_isUsingInProcTestServer)
{
Assert.Single(_metricHandler.NotificationMapping[typeof(ExportTaskMetricsNotification)]);
}
}
/// <summary>
/// Parse Group
/// </summary>
public static Hl7.Fhir.Model.Group ParseGroup(IFhirReader reader, ErrorList errors, Hl7.Fhir.Model.Group existingInstance = null)
{
Hl7.Fhir.Model.Group result = existingInstance != null ? existingInstance : new Hl7.Fhir.Model.Group();
string currentElementName = reader.CurrentElementName;
reader.EnterElement();
while (reader.HasMoreElements())
{
var atName = reader.CurrentElementName;
// Parse element extension
if (atName == "extension")
{
result.Extension = new List <Hl7.Fhir.Model.Extension>();
reader.EnterArray();
while (ParserUtils.IsAtArrayElement(reader, "extension"))
{
result.Extension.Add(ExtensionParser.ParseExtension(reader, errors));
}
reader.LeaveArray();
}
// Parse element language
else if (atName == "language")
{
result.LanguageElement = CodeParser.ParseCode(reader, errors);
}
// Parse element text
else if (atName == "text")
{
result.Text = NarrativeParser.ParseNarrative(reader, errors);
}
// Parse element contained
else if (atName == "contained")
{
result.Contained = new List <Hl7.Fhir.Model.Resource>();
reader.EnterArray();
while (ParserUtils.IsAtArrayElement(reader, "contained"))
{
result.Contained.Add(ParserUtils.ParseContainedResource(reader, errors));
}
reader.LeaveArray();
}
// Parse element _id
else if (atName == "_id")
{
result.LocalIdElement = Id.Parse(reader.ReadPrimitiveContents(typeof(Id)));
}
// Parse element identifier
else if (atName == "identifier")
{
result.Identifier = IdentifierParser.ParseIdentifier(reader, errors);
}
// Parse element type
else if (atName == "type")
{
result.TypeElement = CodeParser.ParseCode <Hl7.Fhir.Model.Group.GroupType>(reader, errors);
}
// Parse element actual
else if (atName == "actual")
{
result.ActualElement = FhirBooleanParser.ParseFhirBoolean(reader, errors);
}
// Parse element code
else if (atName == "code")
{
result.Code = CodeableConceptParser.ParseCodeableConcept(reader, errors);
}
// Parse element name
else if (atName == "name")
{
result.NameElement = FhirStringParser.ParseFhirString(reader, errors);
}
// Parse element quantity
else if (atName == "quantity")
{
result.QuantityElement = IntegerParser.ParseInteger(reader, errors);
}
// Parse element characteristic
else if (atName == "characteristic")
{
result.Characteristic = new List <Hl7.Fhir.Model.Group.GroupCharacteristicComponent>();
reader.EnterArray();
while (ParserUtils.IsAtArrayElement(reader, "characteristic"))
{
result.Characteristic.Add(GroupParser.ParseGroupCharacteristicComponent(reader, errors));
}
reader.LeaveArray();
}
// Parse element member
else if (atName == "member")
{
result.Member = new List <Hl7.Fhir.Model.ResourceReference>();
reader.EnterArray();
while (ParserUtils.IsAtArrayElement(reader, "member"))
{
result.Member.Add(ResourceReferenceParser.ParseResourceReference(reader, errors));
}
reader.LeaveArray();
}
else
{
errors.Add(String.Format("Encountered unknown element {0} while parsing {1}", reader.CurrentElementName, currentElementName), reader);
reader.SkipSubElementsFor(currentElementName);
result = null;
}
}
reader.LeaveElement();
return(result);
}
private async Task <(Dictionary <(string resourceType, string resourceId), Resource> serverData, string groupId)> CreateGroupWithPatient(bool includeAllResources)
{
// Add data for test
var patient = new Patient();
var patientResponse = await _testFhirClient.CreateAsync(patient);
var patientId = patientResponse.Resource.Id;
var relative = new RelatedPerson()
{
Patient = new ResourceReference($"{KnownResourceTypes.Patient}/{patientId}"),
};
var relativeResponse = await _testFhirClient.CreateAsync(relative);
var relativeId = relativeResponse.Resource.Id;
var encounter = new Encounter()
{
Status = Encounter.EncounterStatus.InProgress,
Class = new Coding()
{
Code = "test",
},
Subject = new ResourceReference($"{KnownResourceTypes.Patient}/{patientId}"),
};
var encounterResponse = await _testFhirClient.CreateAsync(encounter);
var encounterId = encounterResponse.Resource.Id;
var observation = new Observation()
{
Status = ObservationStatus.Final,
Code = new CodeableConcept()
{
Coding = new List <Coding>()
{
new Coding()
{
Code = "test",
},
},
},
Subject = new ResourceReference($"{KnownResourceTypes.Patient}/{patientId}"),
};
var observationResponse = await _testFhirClient.CreateAsync(observation);
var observationId = observationResponse.Resource.Id;
var group = new FhirGroup()
{
Type = FhirGroup.GroupType.Person,
Actual = true,
Member = new List <FhirGroup.MemberComponent>()
{
new FhirGroup.MemberComponent()
{
Entity = new ResourceReference($"{KnownResourceTypes.Patient}/{patientId}"),
},
},
};
var groupResponse = await _testFhirClient.CreateAsync(group);
var groupId = groupResponse.Resource.Id;
var resourceDictionary = new Dictionary <(string resourceType, string resourceId), Resource>();
resourceDictionary.Add((KnownResourceTypes.RelatedPerson, relativeId), relativeResponse.Resource);
resourceDictionary.Add((KnownResourceTypes.Encounter, encounterId), encounterResponse.Resource);
if (includeAllResources)
{
resourceDictionary.Add((KnownResourceTypes.Patient, patientId), patientResponse.Resource);
resourceDictionary.Add((KnownResourceTypes.Observation, observationId), observationResponse.Resource);
resourceDictionary.Add((KnownResourceTypes.Group, groupId), groupResponse.Resource);
}
return(resourceDictionary, groupId);
}
public static void SerializeGroup(Hl7.Fhir.Model.Group value, IFhirWriter writer, bool summary)
{
writer.WriteStartRootObject("Group");
writer.WriteStartComplexContent();
// Serialize element _id
if (value.LocalIdElement != null)
{
writer.WritePrimitiveContents("_id", value.LocalIdElement, XmlSerializationHint.Attribute);
}
// Serialize element extension
if (value.Extension != null && !summary && value.Extension.Count > 0)
{
writer.WriteStartArrayElement("extension");
foreach (var item in value.Extension)
{
writer.WriteStartArrayMember("extension");
ExtensionSerializer.SerializeExtension(item, writer, summary);
writer.WriteEndArrayMember();
}
writer.WriteEndArrayElement();
}
// Serialize element language
if (value.LanguageElement != null && !summary)
{
writer.WriteStartElement("language");
CodeSerializer.SerializeCode(value.LanguageElement, writer, summary);
writer.WriteEndElement();
}
// Serialize element text
if (value.Text != null && !summary)
{
writer.WriteStartElement("text");
NarrativeSerializer.SerializeNarrative(value.Text, writer, summary);
writer.WriteEndElement();
}
// Serialize element contained
if (value.Contained != null && !summary && value.Contained.Count > 0)
{
writer.WriteStartArrayElement("contained");
foreach (var item in value.Contained)
{
writer.WriteStartArrayMember("contained");
FhirSerializer.SerializeResource(item, writer, summary);
writer.WriteEndArrayMember();
}
writer.WriteEndArrayElement();
}
// Serialize element identifier
if (value.Identifier != null)
{
writer.WriteStartElement("identifier");
IdentifierSerializer.SerializeIdentifier(value.Identifier, writer, summary);
writer.WriteEndElement();
}
// Serialize element type
if (value.TypeElement != null)
{
writer.WriteStartElement("type");
CodeSerializer.SerializeCode <Hl7.Fhir.Model.Group.GroupType>(value.TypeElement, writer, summary);
writer.WriteEndElement();
}
// Serialize element actual
if (value.ActualElement != null)
{
writer.WriteStartElement("actual");
FhirBooleanSerializer.SerializeFhirBoolean(value.ActualElement, writer, summary);
writer.WriteEndElement();
}
// Serialize element code
if (value.Code != null)
{
writer.WriteStartElement("code");
CodeableConceptSerializer.SerializeCodeableConcept(value.Code, writer, summary);
writer.WriteEndElement();
}
// Serialize element name
if (value.NameElement != null)
{
writer.WriteStartElement("name");
FhirStringSerializer.SerializeFhirString(value.NameElement, writer, summary);
writer.WriteEndElement();
}
// Serialize element quantity
if (value.QuantityElement != null)
{
writer.WriteStartElement("quantity");
IntegerSerializer.SerializeInteger(value.QuantityElement, writer, summary);
writer.WriteEndElement();
}
// Serialize element characteristic
if (value.Characteristic != null && !summary && value.Characteristic.Count > 0)
{
writer.WriteStartArrayElement("characteristic");
foreach (var item in value.Characteristic)
{
writer.WriteStartArrayMember("characteristic");
GroupSerializer.SerializeGroupCharacteristicComponent(item, writer, summary);
writer.WriteEndArrayMember();
}
writer.WriteEndArrayElement();
}
// Serialize element member
if (value.Member != null && !summary && value.Member.Count > 0)
{
writer.WriteStartArrayElement("member");
foreach (var item in value.Member)
{
writer.WriteStartArrayMember("member");
ResourceReferenceSerializer.SerializeResourceReference(item, writer, summary);
writer.WriteEndArrayMember();
}
writer.WriteEndArrayElement();
}
writer.WriteEndComplexContent();
writer.WriteEndRootObject();
}
public override IDeepCopyable CopyTo(IDeepCopyable other)
{
var dest = other as GroupComponent;
if (dest == null)
{
throw new ArgumentException("Can only copy to an object of the same type", "other");
}
base.CopyTo(dest);
if(LinkIdElement != null) dest.LinkIdElement = (Hl7.Fhir.Model.FhirString)LinkIdElement.DeepCopy();
if(TitleElement != null) dest.TitleElement = (Hl7.Fhir.Model.FhirString)TitleElement.DeepCopy();
if(Concept != null) dest.Concept = new List<Hl7.Fhir.Model.Coding>(Concept.DeepCopy());
if(TextElement != null) dest.TextElement = (Hl7.Fhir.Model.FhirString)TextElement.DeepCopy();
if(RequiredElement != null) dest.RequiredElement = (Hl7.Fhir.Model.FhirBoolean)RequiredElement.DeepCopy();
if(RepeatsElement != null) dest.RepeatsElement = (Hl7.Fhir.Model.FhirBoolean)RepeatsElement.DeepCopy();
if(Group != null) dest.Group = new List<Hl7.Fhir.Model.Questionnaire.GroupComponent>(Group.DeepCopy());
if(Question != null) dest.Question = new List<Hl7.Fhir.Model.Questionnaire.QuestionComponent>(Question.DeepCopy());
return dest;
}