private static void ProcessEncounters(List<TimelineEntry> timeline, Bundle matchingEncounters)
{
foreach (var encounter in matchingEncounters.Entries.Select(x => (ResourceEntry<Encounter>)x))
{
DateTimeOffset? startTime;
DateTimeOffset? endTime;
if (encounter.Resource.Hospitalization != null)
{
startTime = DateTimeOffset.Parse(encounter.Resource.Hospitalization.Period.Start);
endTime = DateTimeOffset.Parse(encounter.Resource.Hospitalization.Period.End);
}
else
{
startTime = encounter.Published;
endTime = encounter.Published;
}
timeline.Add(new TimelineEntry
{
StartTime = startTime,
EndTime = endTime,
TypeOfEntry = TimelineEntryType.Encounter,
Summary = encounter.Resource.Reason.ToString()
});
}
}
public Hl7.Fhir.Model.Bundle everythingById(string id)
{
Hl7.Fhir.Model.Bundle ReturnedBundle = null;
try
{
//Attempt to send the resource to the server endpoint
UriBuilder UriBuilderx = new UriBuilder(FhirClientEndPoint);
UriBuilderx.Path = "Patient/" + id;
Hl7.Fhir.Model.Resource ReturnedResource = _client.InstanceOperation(UriBuilderx.Uri, "everything");
if (ReturnedResource is Hl7.Fhir.Model.Bundle)
{
ReturnedBundle = ReturnedResource as Hl7.Fhir.Model.Bundle;
Console.WriteLine("Received: " + ReturnedBundle.Total + " results. ");
}
else
{
throw new Exception("Operation call must return a bundle resource");
}
Console.WriteLine();
}
catch (Hl7.Fhir.Rest.FhirOperationException FhirOpExec)
{
//Process any Fhir Errors returned as OperationOutcome resource
Console.WriteLine();
Console.WriteLine("An error message: " + FhirOpExec.Message);
Console.WriteLine();
string xml = Hl7.Fhir.Serialization.FhirSerializer.SerializeResourceToXml(FhirOpExec.Outcome);
XDocument xDoc = XDocument.Parse(xml);
Console.WriteLine(xDoc.ToString());
}
return(ReturnedBundle);
}
/// <summary>
/// Map the specified <paramref name="modelInstance"/> to a bundle
/// </summary>
public Resource MapToFhir(IdentifiedData modelInstance)
{
if (!(modelInstance is Core.Model.Collection.Bundle sdbBundle))
{
this.m_tracer.TraceError("Instance must be a bundle");
throw new ArgumentException(nameof(modelInstance), this.m_localizationService.FormatString("error.type.ArgumentException", new
{
param = "bundle"
}));
}
var retVal = new Hl7.Fhir.Model.Bundle()
{
Type = Hl7.Fhir.Model.Bundle.BundleType.TransactionResponse,
Meta = new Meta()
{
LastUpdated = DateTimeOffset.Now
}
};
// Parse return value
foreach (var entry in sdbBundle.Item)
{
var handler = FhirResourceHandlerUtil.GetMapperForInstance(entry);
if (handler == null)
{
continue; // TODO: Warn
}
retVal.Entry.Add(new Hl7.Fhir.Model.Bundle.EntryComponent()
{
Resource = handler.MapToFhir(entry)
});
}
return(retVal);
}
internal static Bundle Load(JsonReader reader)
{
JObject feed;
try
{
reader.DateParseHandling = DateParseHandling.None;
reader.FloatParseHandling = FloatParseHandling.Decimal;
feed = JObject.Load(reader);
if( feed.Value<string>(JsonDomFhirReader.RESOURCETYPE_MEMBER_NAME) != "Bundle")
throw Error.Format("Input data is not an json FHIR bundle", null);
}
catch (Exception exc)
{
throw Error.Format("Exception while parsing feed: " + exc.Message, null);
}
Bundle result;
try
{
result = new Bundle()
{
Title = feed.Value<string>(BundleXmlParser.XATOM_TITLE),
LastUpdated = instantOrNull(feed[BundleXmlParser.XATOM_UPDATED]),
Id = SerializationUtil.UriValueOrNull(feed[BundleXmlParser.XATOM_ID]),
Links = getLinks(feed[BundleXmlParser.XATOM_LINK]),
Tags = TagListParser.ParseTags(feed[BundleXmlParser.XATOM_CATEGORY]),
AuthorName = feed[BundleXmlParser.XATOM_AUTHOR] as JArray != null ?
feed[BundleXmlParser.XATOM_AUTHOR]
.Select(auth => auth.Value<string>(BundleXmlParser.XATOM_AUTH_NAME))
.FirstOrDefault()
: null,
AuthorUri = feed[BundleXmlParser.XATOM_AUTHOR] as JArray != null ?
feed[BundleXmlParser.XATOM_AUTHOR]
.Select(auth => auth.Value<string>(BundleXmlParser.XATOM_AUTH_URI))
.FirstOrDefault() : null,
TotalResults = intValueOrNull(feed[BundleXmlParser.XATOM_TOTALRESULTS])
};
}
catch (Exception exc)
{
throw Error.Format("Exception while parsing json feed attributes: " + exc.Message, null);
}
var entries = feed[BundleXmlParser.XATOM_ENTRY];
if (entries != null)
{
if (!(entries is JArray))
{
throw Error.Format("The json feed contains a single entry, instead of an array", null);
}
result.Entries = loadEntries((JArray)entries, result);
}
return result;
}
public static void DebugDumpBundle(Hl7.Fhir.Model.Bundle b)
{
System.Diagnostics.Trace.WriteLine(String.Format("--------------------------------------------\r\nBundle Type: {0} ({1} total items, {2} included)", b.Type.ToString(), b.Total, (b.Entry != null ? b.Entry.Count.ToString() : "-")));
if (b.Entry != null)
{
foreach (var item in b.Entry)
{
if (item.Request != null)
{
System.Diagnostics.Trace.WriteLine(String.Format(" {0}: {1}", item.Request.Method.ToString(), item.Request.Url));
}
if (item.Response != null && item.Response.Status != null)
{
System.Diagnostics.Trace.WriteLine(String.Format(" {0}", item.Response.Status));
}
if (item.Resource != null && item.Resource is Hl7.Fhir.Model.DomainResource)
{
if (item.Resource.Meta != null && item.Resource.Meta.LastUpdated.HasValue)
{
System.Diagnostics.Trace.WriteLine(String.Format(" Last Updated:{0}, [{1}]", item.Resource.Meta.LastUpdated.Value, item.Resource.Meta.LastUpdated.Value.ToString("HH:mm:ss.FFFF")));
}
Hl7.Fhir.Rest.ResourceIdentity ri = new Hl7.Fhir.Rest.ResourceIdentity(item.FullUrl);
System.Diagnostics.Trace.WriteLine(String.Format(" {0}", (item.Resource as Hl7.Fhir.Model.DomainResource).ResourceIdentity(ri.BaseUri).OriginalString));
}
}
}
}
private void getPatientById(string id) //TODO zaimplementować to w HistoryForm
{
Patient p = null;
List <Observation> observations = new List <Observation>();
List <Medication> medications = new List <Medication>();
List <MedicationStatement> medicationStatements = new List <MedicationStatement>();
Hl7.Fhir.Model.Bundle ReturnedBundle = db.everythingById(id);
foreach (var Entry in ReturnedBundle.Entry)
{
if (Entry.Resource is Patient)
{
p = (Patient)Entry.Resource;
}
if (Entry.Resource is Observation)
{
observations.Add((Observation)Entry.Resource);
}
if (Entry.Resource is Medication)
{
medications.Add((Medication)Entry.Resource);
}
if (Entry.Resource is MedicationStatement)
{
medicationStatements.Add((MedicationStatement)Entry.Resource);
}
Console.WriteLine(string.Format("{0}/{1}", Entry.Resource.TypeName, Entry.Resource.Id));
}
Console.WriteLine(string.Format("{0} {1}", p.Name.First().Given.FirstOrDefault(), p.Name.First().Family));
Period a = medicationStatements[0].Effective as Period;
Console.WriteLine(string.Format("{0}", a.Start));
}
public static Bundle CreateBundle(this ILocalhost localhost, Bundle.BundleType type)
{
Bundle bundle = new Bundle();
bundle.Base = localhost.Base.ToString();
bundle.Type = type;
return bundle;
}
public static void WriteTo(Bundle bundle, JsonWriter writer, bool summary = false)
{
if (bundle == null) throw new ArgumentException("Bundle cannot be null");
JObject result = new JObject();
result.Add(new JProperty(JsonDomFhirReader.RESOURCETYPE_MEMBER_NAME, "Bundle"));
if (!String.IsNullOrWhiteSpace(bundle.Title))
result.Add(new JProperty(BundleXmlParser.XATOM_TITLE, bundle.Title));
if (SerializationUtil.UriHasValue(bundle.Id)) result.Add(new JProperty(BundleXmlParser.XATOM_ID, bundle.Id));
if (bundle.LastUpdated != null)
result.Add(new JProperty(BundleXmlParser.XATOM_UPDATED, bundle.LastUpdated));
if (!String.IsNullOrWhiteSpace(bundle.AuthorName))
result.Add(jsonCreateAuthor(bundle.AuthorName, bundle.AuthorUri));
if (bundle.TotalResults != null) result.Add(new JProperty(BundleXmlParser.XATOM_TOTALRESULTS, bundle.TotalResults.ToString()));
if (bundle.Links.Count > 0)
result.Add(new JProperty(BundleXmlParser.XATOM_LINK, jsonCreateLinkArray(bundle.Links)));
if (bundle.Tags != null && bundle.Tags.Count() > 0)
result.Add( TagListSerializer.CreateTagCategoryPropertyJson(bundle.Tags));
var entryArray = new JArray();
foreach (var entry in bundle.Entries)
entryArray.Add(createEntry(entry,summary));
result.Add(new JProperty(BundleXmlParser.XATOM_ENTRY, entryArray));
result.WriteTo(writer);
}
public void TestSigning()
{
Bundle b = new Bundle();
b.Title = "Updates to resource 233";
b.Id = new Uri("urn:uuid:0d0dcca9-23b9-4149-8619-65002224c3");
b.LastUpdated = new DateTimeOffset(2012, 11, 2, 14, 17, 21, TimeSpan.Zero);
b.AuthorName = "Ewout Kramer";
ResourceEntry<Patient> p = new ResourceEntry<Patient>();
p.Id = new ResourceIdentity("http://test.com/fhir/Patient/233");
p.Resource = new Patient();
p.Resource.Name = new List<HumanName> { HumanName.ForFamily("Kramer").WithGiven("Ewout") };
b.Entries.Add(p);
var certificate = getCertificate();
var bundleData = FhirSerializer.SerializeBundleToXmlBytes(b);
var bundleXml = Encoding.UTF8.GetString(bundleData);
var bundleSigned = XmlSignatureHelper.Sign(bundleXml, certificate);
_signedXml = bundleSigned;
using (var response = postBundle(bundleSigned))
{
if (response.StatusCode != HttpStatusCode.OK) TestResult.Fail("Server refused POSTing signed document at /");
}
}
public async Task <BundleResponse> Handle(BundleRequest bundleRequest, CancellationToken cancellationToken)
{
var bundleResource = bundleRequest.Bundle.ToPoco <Hl7.Fhir.Model.Bundle>();
await FillRequestLists(bundleResource.Entry);
if (bundleResource.Type == Hl7.Fhir.Model.Bundle.BundleType.Batch)
{
var responseBundle = new Hl7.Fhir.Model.Bundle
{
Type = Hl7.Fhir.Model.Bundle.BundleType.BatchResponse,
};
await ExecuteAllRequests(responseBundle);
return(new BundleResponse(responseBundle.ToResourceElement()));
}
else if (bundleResource.Type == Hl7.Fhir.Model.Bundle.BundleType.Transaction)
{
var responseBundle = new Hl7.Fhir.Model.Bundle
{
Type = Hl7.Fhir.Model.Bundle.BundleType.TransactionResponse,
};
return(await ExecuteTransactionForAllRequests(responseBundle));
}
throw new MethodNotAllowedException(string.Format(Api.Resources.InvalidBundleType, bundleResource.Type));
}
public static void WriteTo(Bundle bundle, XmlWriter writer, bool summary = false)
{
if (bundle == null) throw new ArgumentException("Bundle cannot be null");
var root = new XElement(BundleXmlParser.XATOMNS + BundleXmlParser.XATOM_FEED);
if (!String.IsNullOrWhiteSpace(bundle.Title)) root.Add(xmlCreateTitle(bundle.Title));
if (SerializationUtil.UriHasValue(bundle.Id)) root.Add(xmlCreateId(bundle.Id));
if (bundle.LastUpdated != null) root.Add(new XElement(BundleXmlParser.XATOMNS + BundleXmlParser.XATOM_UPDATED, bundle.LastUpdated));
if (!String.IsNullOrWhiteSpace(bundle.AuthorName))
root.Add(xmlCreateAuthor(bundle.AuthorName, bundle.AuthorUri));
if (bundle.TotalResults != null) root.Add(new XElement(BundleXmlParser.XOPENSEARCHNS + BundleXmlParser.XATOM_TOTALRESULTS, bundle.TotalResults));
if (bundle.Links != null)
{
foreach (var l in bundle.Links)
root.Add(xmlCreateLink(l.Rel, l.Uri));
}
if (bundle.Tags != null)
{
foreach (var tag in bundle.Tags)
root.Add(TagListSerializer.CreateTagCategoryPropertyXml(tag));
}
foreach (var entry in bundle.Entries)
root.Add(createEntry(entry, summary));
root.WriteTo(writer);
//var result = new XDocument(root);
//result.WriteTo(writer);
}
public List <Hl7.Fhir.Model.Observation> observationsByID(string id)
{
List <Hl7.Fhir.Model.Observation> observations = new List <Observation>();
try
{
//Attempt to send the resource to the server endpoint
UriBuilder UriBuilderx = new UriBuilder(FhirClientEndPoint);
UriBuilderx.Path = "Patient/" + id;
Hl7.Fhir.Model.Resource ReturnedResource = _client.InstanceOperation(UriBuilderx.Uri, "everything");
if (ReturnedResource is Hl7.Fhir.Model.Bundle)
{
Hl7.Fhir.Model.Bundle ReturnedBundle = ReturnedResource as Hl7.Fhir.Model.Bundle;
foreach (var Entry in ReturnedBundle.Entry)
{
if (Entry.Resource is Observation)
{
observations.Add((Observation)Entry.Resource);
}
}
}
else
{
throw new Exception("Operation call must return a bundle resource");
}
}
catch (Hl7.Fhir.Rest.FhirOperationException FhirOpExec)
{
Console.WriteLine("An error message: " + FhirOpExec.Message);
}
return(observations);
}
/// <summary>
/// Creates a snapshot for search commands
/// </summary>
public Snapshot CreateSnapshot(Bundle.BundleType type, Uri link, IEnumerable<string> keys, string sortby = null, int? count = null, IList<string> includes = null)
{
Snapshot snapshot = Snapshot.Create(type, link, keys, sortby, NormalizeCount(count), includes);
snapshotstore.AddSnapshot(snapshot);
return snapshot;
}
public static bool TryValidate(Bundle bundle, ICollection<ValidationResult> validationResults = null)
{
if (bundle == null) throw new ArgumentNullException("bundle");
var results = validationResults ?? new List<ValidationResult>();
return Validator.TryValidateObject(bundle, ValidationContextFactory.Create(bundle, null), results, true);
}
public static Key ExtractKey(this Localhost localhost, Bundle.BundleEntryComponent entry)
{
Uri uri = new Uri(entry.Request.Url, UriKind.RelativeOrAbsolute);
Key compare = ExtractKey(uri); // This fails!! ResourceIdentity does not work in this case.
return localhost.LocalUriToKey(uri);
}
private void getPatientData()
{
Patient p = patient;
observations = new List <Observation>();
medications = new List <Medication>();
medicationStatements = new List <MedicationStatement>();
Hl7.Fhir.Model.Bundle ReturnedBundle = data;
foreach (var Entry in ReturnedBundle.Entry)
{
if (Entry.Resource is Patient)
{
p = (Patient)Entry.Resource;
}
if (Entry.Resource is Observation)
{
observations.Add((Observation)Entry.Resource);
}
if (Entry.Resource is Medication)
{
medications.Add((Medication)Entry.Resource);
}
if (Entry.Resource is MedicationStatement)
{
medicationStatements.Add((MedicationStatement)Entry.Resource);
}
//Console.WriteLine(string.Format("{0}/{1}", Entry.Resource.TypeName, Entry.Resource.Id));
}
//Console.WriteLine(string.Format("{0} {1}", p.Name.First().Given.FirstOrDefault(), p.Name.First().Family));
//Period a = medicationStatements[0].Effective as Period;
//Console.WriteLine(string.Format("{0}", a.Start));
}
public void ResourceListFiltering()
{
var testBundle = new Bundle();
testBundle.AddResourceEntry(new Patient { Id = "1234", Meta = new Meta { VersionId = "v2" } }, "http://nu.nl/fhir/Patient/1234");
testBundle.AddResourceEntry(new Patient { Id = "1234", Meta = new Meta { VersionId = "v3" } }, "http://nu.nl/fhir/Patient/1234");
testBundle.AddResourceEntry(new Patient { Id = "1234", Meta = new Meta { VersionId = "v4" } }, "http://nu.nl/fhir/Patient/1234")
.Request = new Bundle.BundleEntryRequestComponent { Method = Bundle.HTTPVerb.DELETE } ;
testBundle.AddResourceEntry(new Patient { Id = "5678" }, "http://server1.com/fhir/Patient/5678");
testBundle.AddResourceEntry(new Patient { Id = "1.2.3.4.5" }, "urn:oid:1.2.3.4.5");
var result = testBundle.FindEntry("http://nu.nl/fhir/Patient/1234");
Assert.AreEqual(2, result.Count());
result = testBundle.FindEntry("http://nu.nl/fhir/Patient/1234", includeDeleted: true);
Assert.AreEqual(3, result.Count());
result = testBundle.FindEntry("http://nu.nl/fhir/Patient/1234/_history/v3", includeDeleted: true);
Assert.AreEqual(1, result.Count());
result = testBundle.FindEntry(new Uri("http://server3.org/fhir/Patient/1234"));
Assert.AreEqual(0, result.Count());
result = testBundle.FindEntry(new Uri("http://server1.com/fhir/Patient/5678"));
Assert.AreEqual(1, result.Count());
result = testBundle.FindEntry(new Uri("http://server2.com/fhir/Patient/5678"));
Assert.AreEqual(0, result.Count());
result = testBundle.FindEntry(new Uri("urn:oid:1.2.3.4.5"));
Assert.AreEqual(1, result.Count());
}
public void ResourceListFiltering()
{
var testBundle = new Bundle();
testBundle.Entry.Add(new Bundle.BundleEntryComponent { Resource = new Patient { Id = "1234", Meta = new Meta { VersionId = "v2" } } });
testBundle.Entry.Add(new Bundle.BundleEntryComponent { Resource = new Patient { Id = "1234", Meta = new Meta { VersionId = "v3" } } });
testBundle.Entry.Add(new Bundle.BundleEntryComponent { Resource = new Patient { Id = "1234", Meta = new Meta { VersionId = "v4"} },
Transaction = new Bundle.BundleEntryTransactionComponent {Method = Bundle.HTTPVerb.DELETE} });
testBundle.Entry.Add(new Bundle.BundleEntryComponent { Resource = new Patient { Id = "5678" }, Base = "http://server1.com/fhir" });
testBundle.Entry.Add(new Bundle.BundleEntryComponent { Resource = new Patient { Id = "1.2.3.4.5" }, Base = "urn:oid:" });
var result = testBundle.FindEntry("Patient", "1234");
Assert.AreEqual(2, result.Count());
result = testBundle.FindEntry("Patient", "1234", includeDeleted: true);
Assert.AreEqual(3, result.Count());
result = testBundle.FindEntry("Patient", "1234", "v3", includeDeleted: true);
Assert.AreEqual(1, result.Count());
result = testBundle.FindEntry(new Uri("http://server3.org/fhir/Patient/1234"));
Assert.AreEqual(0, result.Count());
result = testBundle.FindEntry("Patient", "5678");
Assert.AreEqual(1, result.Count());
result = testBundle.FindEntry(new Uri("http://server1.com/fhir/Patient/5678"));
Assert.AreEqual(1, result.Count());
result = testBundle.FindEntry(new Uri("http://server2.com/fhir/Patient/5678"));
Assert.AreEqual(0, result.Count());
result = testBundle.FindEntry(new Uri("urn:oid:1.2.3.4.5"));
Assert.AreEqual(1, result.Count());
}
public static void Append(this Bundle bundle, Bundle.HTTPVerb method, IEnumerable<Resource> resources)
{
foreach (Resource resource in resources)
{
bundle.Append(method, resource);
}
}
public async Task GivenATransactionBundleRequestWithNullUrl_WhenProcessing_ReturnsABadRequest()
{
var bundle = new Hl7.Fhir.Model.Bundle
{
Type = BundleType.Transaction,
Entry = new List <EntryComponent>
{
new EntryComponent
{
Request = new RequestComponent
{
Method = HTTPVerb.PUT,
Url = null,
},
Resource = new Basic {
Id = "test"
},
},
},
};
_router.When(r => r.RouteAsync(Arg.Any <RouteContext>()))
.Do(RouteAsyncFunction);
var bundleRequest = new BundleRequest(bundle.ToResourceElement());
await Assert.ThrowsAsync <RequestNotValidException>(async() => await _bundleHandler.Handle(bundleRequest, default));
}
public void TestSigning()
{
Bundle b = new Bundle();
b.Title = "Updates to resource 233";
b.Id = new Uri("urn:uuid:0d0dcca9-23b9-4149-8619-65002224c3");
b.LastUpdated = new DateTimeOffset(2012, 11, 2, 14, 17, 21, TimeSpan.Zero);
b.AuthorName = "Ewout Kramer";
ResourceEntry<Patient> p = new ResourceEntry<Patient>();
p.Id = new ResourceIdentity("http://test.com/fhir/Patient/233");
p.Resource = new Patient();
p.Resource.Name = new List<HumanName> { HumanName.ForFamily("Kramer").WithGiven("Ewout") };
b.Entries.Add(p);
var myAssembly = typeof(TestXmlSignature).Assembly;
var stream = myAssembly.GetManifestResourceStream("Spark.Tests.spark.pfx");
var data = new byte[stream.Length];
stream.Read(data,0,(int)stream.Length);
var certificate = new X509Certificate2(data);
var bundleData = FhirSerializer.SerializeBundleToXmlBytes(b);
var bundleXml = Encoding.UTF8.GetString(bundleData);
var bundleSigned = XmlSignatureHelper.Sign(bundleXml, certificate);
Assert.IsTrue(XmlSignatureHelper.IsSigned(bundleSigned));
Assert.IsTrue(XmlSignatureHelper.VerifySignature(bundleSigned));
var changedBundle = bundleSigned.Replace("<name>Ewout", "<name>Ewald");
Assert.AreEqual(bundleSigned.Length, changedBundle.Length);
Assert.IsFalse(XmlSignatureHelper.VerifySignature(changedBundle));
}
public async Task GivenABundleWithMultipleCalls_WhenProcessed_ThenANotificationWillBeEmitted(BundleType type, HTTPVerb method1, HTTPVerb method2, int code200s, int code404s)
{
var bundle = new Hl7.Fhir.Model.Bundle
{
Type = type,
Entry = new List <EntryComponent>
{
new EntryComponent
{
Request = new RequestComponent
{
Method = method1,
Url = "unused1",
},
Resource = new Patient(),
},
new EntryComponent
{
Request = new RequestComponent
{
Method = method2,
Url = "unused2",
},
Resource = new Patient(),
},
},
};
_router.When(r => r.RouteAsync(Arg.Any <RouteContext>()))
.Do(RouteAsyncFunction);
BundleMetricsNotification notification = null;
await _mediator.Publish(Arg.Do <BundleMetricsNotification>(note => notification = note), Arg.Any <CancellationToken>());
var bundleRequest = new BundleRequest(bundle.ToResourceElement());
BundleResponse bundleResponse = await _bundleHandler.Handle(bundleRequest, default);
var bundleResource = bundleResponse.Bundle.ToPoco <Hl7.Fhir.Model.Bundle>();
Assert.Equal(type == BundleType.Batch ? BundleType.BatchResponse : BundleType.TransactionResponse, bundleResource.Type);
Assert.Equal(2, bundleResource.Entry.Count);
await _mediator.Received().Publish(Arg.Any <BundleMetricsNotification>(), Arg.Any <CancellationToken>());
Assert.Equal(type == BundleType.Batch ? AuditEventSubType.Batch : AuditEventSubType.Transaction, notification.FhirOperation);
var results = notification.ApiCallResults;
Assert.Equal(code200s, results["200"]);
if (code404s > 0)
{
Assert.Equal(code404s, results["404"]);
}
else
{
Assert.Equal(1, results.Keys.Count);
}
}
public static void AssertEntryIdsArePresentAndAbsoluteUrls(Bundle b)
{
if (b.Entries.Any(e => e.Id == null || e.SelfLink == null))
TestResult.Fail("Some id/selflinks in the bundle are null");
if (!b.Entries.All(e => e.Id.IsAbsoluteUri && e.SelfLink.IsAbsoluteUri))
TestResult.Fail("Some id/selflinks in the bundle are relative");
}
private Bundle.EntryComponent newEntry(Bundle.HTTPVerb method)
{
var newEntry = new Bundle.EntryComponent();
newEntry.Request = new Bundle.RequestComponent();
newEntry.Request.Method = method;
return newEntry;
}
public static void Append(this Bundle bundle, Bundle.HTTPVerb method, Resource resource)
{
Bundle.BundleEntryComponent entry = CreateEntryForResource(resource);
if (entry.Request == null) entry.Request = new Bundle.BundleEntryRequestComponent();
entry.Request.Method = method;
bundle.Entry.Add(entry);
}
public static Bundle Bundle()
{
Bundle bundle = new Bundle();
Patient p = Test.Patient();
BundleEntry entry = ResourceEntry.Create(p);
bundle.Entries.Add(entry);
return bundle;
}
public static ParsedPatient FromBundle(Bundle bundle)
{
return(new ParsedPatient {
Resources = bundle.Entry.Select(e => new ParsedResource {
Resource = e.Resource
}).ToList(), Seed = Seed.Random()
});
}
private Bundle.BundleEntryComponent newEntry(Bundle.HTTPVerb method)
{
var newEntry = new Bundle.BundleEntryComponent();
newEntry.Transaction = new Bundle.BundleEntryTransactionComponent();
newEntry.Transaction.Method = method;
return newEntry;
}
public async Task <IEnumerable <Observation> > GetObservationsAsync(string userId)
{
FHIR.Bundle result = await _fhirClient.SearchAsync <FHIR.Observation>(new SearchParams().Add("subject:Patient.identifier", userId));
return(result.Entry
.Select(e => (FHIR.Observation)e.Resource)
.Select(ConvertObservation));
}
public async Task GivenABundle_WhenOneRequestProducesA429_429IsRetriedThenSucceeds()
{
var bundle = new Hl7.Fhir.Model.Bundle
{
Type = BundleType.Batch,
Entry = new List <EntryComponent>
{
new EntryComponent {
Request = new RequestComponent {
Method = HTTPVerb.GET, Url = "/Patient"
}
},
new EntryComponent {
Request = new RequestComponent {
Method = HTTPVerb.GET, Url = "/Patient"
}
},
new EntryComponent {
Request = new RequestComponent {
Method = HTTPVerb.GET, Url = "/Patient"
}
},
},
};
int callCount = 0;
_router.When(r => r.RouteAsync(Arg.Any <RouteContext>()))
.Do(info =>
{
info.Arg <RouteContext>().Handler = context =>
{
callCount++;
if (callCount == 2)
{
context.Response.StatusCode = StatusCodes.Status429TooManyRequests;
}
else
{
context.Response.StatusCode = StatusCodes.Status200OK;
}
return(Task.CompletedTask);
};
});
var bundleRequest = new BundleRequest(bundle.ToResourceElement());
BundleResponse bundleResponse = await _bundleHandler.Handle(bundleRequest, default);
Assert.Equal(4, callCount);
var bundleResource = bundleResponse.Bundle.ToPoco <Hl7.Fhir.Model.Bundle>();
Assert.Equal(3, bundleResource.Entry.Count);
foreach (var entry in bundleResource.Entry)
{
Assert.Equal("200", entry.Response.Status);
}
}
public static void Append(this Bundle bundle, Bundle.HTTPVerb method, Resource resource)
{
var entry = new Bundle.BundleEntryComponent();
entry.Resource = resource;
entry.Base = bundle.Base;
if (entry.Transaction == null) entry.Transaction = new Bundle.BundleEntryTransactionComponent();
entry.Transaction.Method = method;
bundle.Entry.Add(entry);
}
public async Task GivenABundleWithAGet_WhenNotAuthorized_ReturnsABundleResponseWithCorrectEntry()
{
var bundle = new Hl7.Fhir.Model.Bundle
{
Type = Hl7.Fhir.Model.Bundle.BundleType.Batch,
Entry = new List <Hl7.Fhir.Model.Bundle.EntryComponent>
{
new Hl7.Fhir.Model.Bundle.EntryComponent
{
Request = new Hl7.Fhir.Model.Bundle.RequestComponent
{
Method = Hl7.Fhir.Model.Bundle.HTTPVerb.GET,
Url = "/Patient",
},
},
},
};
_router.When(r => r.RouteAsync(Arg.Any <RouteContext>()))
.Do(RouteAsyncFunction);
var bundleRequest = new BundleRequest(bundle.ToResourceElement());
BundleResponse bundleResponse = await _bundleHandler.Handle(bundleRequest, CancellationToken.None);
var bundleResource = bundleResponse.Bundle.ToPoco <Hl7.Fhir.Model.Bundle>();
Assert.Equal(Hl7.Fhir.Model.Bundle.BundleType.BatchResponse, bundleResource.Type);
Assert.Single(bundleResource.Entry);
Hl7.Fhir.Model.Bundle.EntryComponent entryComponent = bundleResource.Entry.First();
Assert.Equal("403", entryComponent.Response.Status);
var operationOutcome = entryComponent.Response.Outcome as OperationOutcome;
Assert.NotNull(operationOutcome);
Assert.Single(operationOutcome.Issue);
var issueComponent = operationOutcome.Issue.First();
Assert.Equal(OperationOutcome.IssueSeverity.Error, issueComponent.Severity);
Assert.Equal(OperationOutcome.IssueType.Forbidden, issueComponent.Code);
Assert.Equal("Authorization failed.", issueComponent.Diagnostics);
void RouteAsyncFunction(CallInfo callInfo)
{
var routeContext = callInfo.Arg <RouteContext>();
routeContext.Handler = context =>
{
context.Response.StatusCode = 403;
return(Task.CompletedTask);
};
}
}
public void SetBody(Bundle bundle, ResourceFormat format)
{
if (bundle == null) throw Error.ArgumentNull("bundle");
_body = format == ResourceFormat.Xml ?
FhirSerializer.SerializeBundleToXmlBytes(bundle, summary: false) :
FhirSerializer.SerializeBundleToJsonBytes(bundle, summary: false);
_contentType = ContentType.BuildContentType(format, forBundle: true);
}
public async Task GivenABundle_WhenMultipleRequests_ReturnsABundleResponseWithCorrectOrder()
{
var bundle = new Hl7.Fhir.Model.Bundle
{
Type = Hl7.Fhir.Model.Bundle.BundleType.Batch,
Entry = new List <Hl7.Fhir.Model.Bundle.EntryComponent>
{
new Hl7.Fhir.Model.Bundle.EntryComponent
{
Request = new RequestComponent
{
Method = HTTPVerb.GET,
Url = "/Patient",
},
},
new Hl7.Fhir.Model.Bundle.EntryComponent
{
Request = new RequestComponent
{
Method = HTTPVerb.POST,
Url = "/Patient",
},
Resource = new Hl7.Fhir.Model.Patient
{
},
},
new Hl7.Fhir.Model.Bundle.EntryComponent
{
Request = new RequestComponent
{
Method = HTTPVerb.PUT,
Url = "/Patient/789",
},
Resource = new Hl7.Fhir.Model.Patient
{
},
},
},
};
_router.When(r => r.RouteAsync(Arg.Any <RouteContext>()))
.Do(RouteAsyncFunction);
var bundleRequest = new BundleRequest(bundle.ToResourceElement());
BundleResponse bundleResponse = await _bundleHandler.Handle(bundleRequest, default);
var bundleResource = bundleResponse.Bundle.ToPoco <Hl7.Fhir.Model.Bundle>();
Assert.Equal(Hl7.Fhir.Model.Bundle.BundleType.BatchResponse, bundleResource.Type);
Assert.Equal(3, bundleResource.Entry.Count);
Assert.Equal("403", bundleResource.Entry[0].Response.Status);
Assert.Equal("404", bundleResource.Entry[1].Response.Status);
Assert.Equal("200", bundleResource.Entry[2].Response.Status);
}
public static Snapshot TakeSnapshotFromBundle(Bundle bundle)
{
// Is Snapshot not a type of bundle???
Snapshot snapshot = new Snapshot();
snapshot.FeedTitle = bundle.Title;
snapshot.Id = Guid.NewGuid().ToString();
snapshot.FeedSelfLink = bundle.Links.SelfLink.ToString();
snapshot.Contents = bundle.SelfLinks();
snapshot.MatchCount = snapshot.Contents.Count();
return snapshot;
}
public static IList<Interaction> GetInteractions(this ILocalhost localhost, Bundle bundle)
{
var interactions = new List<Interaction>();
foreach(var entry in bundle.Entry)
{
Interaction interaction = localhost.ToInteraction(entry);
interaction.SupplementBase(bundle.Base);
interactions.Add(interaction);
}
return interactions;
}
private void ensureAbsoluteUris(Bundle bundle)
{
bundle.Id = makeAbsolute(bundle.Id);
foreach (var link in bundle.Links)
link.Uri = makeAbsolute(link.Uri);
foreach (BundleEntry be in bundle.Entries)
ensureAbsoluteUris(be);
bundle.Links.Base = _endpoint;
}
public Bundle FirstPage(Bundle bundle, int count)
{
Snapshot snapshot = Snapshot.TakeSnapshotFromBundle(bundle);
if (bundle.Entries.Count > count)
{
_store.StoreSnapshot(snapshot);
}
// Return the first page
return GetPage(snapshot, 0, count);
}
public Bundle.BundleEntryComponent Execute(Bundle.BundleEntryComponent interaction, Type expected)
{
if (interaction == null) throw Error.ArgumentNull("interaction");
LastResult = doRequest(interaction);
var status = LastResult.Response.Status;
HttpStatusCode statusCode;
if (!Enum.TryParse<HttpStatusCode>(status, out statusCode))
{
// If the status code is unable to be parsed, then report
// in internal server error
statusCode = HttpStatusCode.InternalServerError;
}
if (status.StartsWith("2")) // 2xx codes - success
{
// We have a successful call, but the body is not of the type we expect.
if (LastResult.Resource != null && !LastResult.Resource.GetType().CanBeTreatedAsType(expected))
{
// If this is an operationoutcome, that may still be allright. Keep the OperationOutcome in
// the LastResult, and return null as the result.
if (LastResult.Resource is OperationOutcome)
return null;
var message = String.Format("Operation {0} on {1} expected a body of type {2} but a {3} was returned", LastResult.Request.Method,
LastResult.Request.Url, expected.Name, LastResult.Resource.GetType().Name);
throw new FhirOperationException(message, statusCode);
}
return LastResult;
}
else if (status.StartsWith("3") || status.StartsWith("1")) // 3xx codes - we don't handle them, unless the .NET API did it for us
{
throw Error.NotSupported("Server returned a status code '{0}', which is not supported by the FhirClient".FormatWith(status));
}
else if (status.StartsWith("4") || status.StartsWith("5")) // 4xx/5xx codes - client or server error.
{
var message = String.Format("Operation was unsuccessful, and returned status {0}.", status);
var outcome = LastResult.Resource as OperationOutcome;
if (outcome != null)
{
throw new FhirOperationException(message + " OperationOutcome: " + outcome.ToString(), statusCode, outcome);
}
else
throw new FhirOperationException(message, statusCode);
}
else
{
throw Error.NotSupported("Server returned an illegal http status code '{0}', which is not defined by the Http standard".FormatWith(status));
}
}
protected async Task <TResource> GetResourceByIdentityAsync <TResource>(Model.Identifier identifier)
where TResource : Model.Resource, new()
{
EnsureArg.IsNotNull(identifier, nameof(identifier));
string fhirTypeName = ModelInfo.GetFhirTypeNameForType(typeof(TResource));
_ = Enum.TryParse(fhirTypeName, out ResourceType resourceType);
Model.Bundle result = await FhirService.SearchForResourceAsync(resourceType, identifier.ToSearchQueryParameter()).ConfigureAwait(false);
return(await result.ReadOneFromBundleWithContinuationAsync <TResource>(FhirService));
}
public void testExtensionDefinitions()
{
// obsolete:
// Bundle b = (Bundle)FhirParser.ParseResourceFromXml(File.ReadAllText("TestData\\extension-definitions.xml"));
var parser = new FhirXmlParser();
Model.Bundle b = parser.Parse <Model.Bundle>(File.ReadAllText("TestData\\extension-definitions.xml"));
foreach (Model.Bundle.EntryComponent be in b.Entry)
{
testStructureDefinition((Model.StructureDefinition)be.Resource);
}
}
public void BundleEntryByReference()
{
Bundle b = new Bundle();
b.Entries.Add(new ResourceEntry<Patient> { Id = new Uri("http://x.com/Patient/1"), SelfLink = new Uri("http://x.com/Patient/1/_history/1") });
b.Entries.Add(new ResourceEntry<Patient> { Id = new Uri("http://x.com/Patient/1"), SelfLink = new Uri("http://x.com/Patient/1/_history/2") });
b.Entries.Add(new ResourceEntry<Patient> { Id = new Uri("http://y.com/Patient/1"), SelfLink = new Uri("http://y.com/Patient/1") });
b.Links.Base = new Uri("http://x.com");
Assert.AreEqual(2, b.FindEntryByReference(new Uri("Patient/1", UriKind.Relative)).Count());
Assert.AreEqual(1, b.FindEntryByReference(new Uri("Patient/1/_history/1", UriKind.Relative)).Count());
Assert.AreEqual(2, b.FindEntryByReference(new Uri("http://y.com/Patient/1")).Count());
}
public void TestPostXds()
{
Bundle xdsBundle = DemoData.GetDemoConn5ExampleBundle();
xdsBundle.SetBundleType(BundleType.Document);
_deliveryResult = client.DeliverToMailbox(xdsBundle);
if (_deliveryResult.Entries.Count != 12)
TestResult.Fail("Result bundle should contain exactly two resources");
if(_deliveryResult.Entries.ByResourceType<DocumentReference>().Count() != 1)
TestResult.Fail("Result bundle should contain one DocumentReference");
if (_deliveryResult.Entries.ByResourceType<Binary>().Count() != 1)
TestResult.Fail("Result bundle should contain one Binary");
}
public void TestPostXdsWidthCid()
{
Bundle xdsBundle = DemoData.GetDemoConn5CidExampleBundle();
xdsBundle.SetBundleType(BundleType.Document);
_deliveryResult = client.DeliverToMailbox(xdsBundle);
if (_deliveryResult.Entries.Count != 7)
TestResult.Fail("Result bundle should contain exactly 7 resources");
if (_deliveryResult.Entries.ByResourceType<DocumentReference>().Count() != 1)
TestResult.Fail("Result bundle should contain one DocumentReference");
if (_deliveryResult.Entries.ByResourceType<Binary>().Count() != 1)
TestResult.Fail("Result bundle should contain one Binary");
HttpTests.AssertEntryIdsArePresentAndAbsoluteUrls(_deliveryResult);
}
public static Key ExtractKey(this ILocalhost localhost, Bundle.BundleEntryComponent entry)
{
if (entry.Transaction != null && entry.Transaction.Url != null)
{
return localhost.UriToKey(entry.Transaction.Url);
}
else if (entry.Resource != null)
{
return entry.Resource.ExtractKey();
}
else
{
return null;
}
}
public async Task <SearchObservationsResponse> GetObservationsAsync()
{
string userId = _userContext.UserId;
FHIR.Bundle result = await _fhirClient.SearchAsync <FHIR.Observation>(new SearchParams().Add("subject:Patient.identifier", userId));
IEnumerable <Observation> observations = result.Entry
.Select(e => (FHIR.Observation)e.Resource)
.Select(ConvertObservation);
return(new SearchObservationsResponse
{
Observations = observations
});
}
public static Snapshot Create(Bundle.BundleType type, Uri selflink, IEnumerable<string> keys, string sortby, IEnumerable<string> includes = null)
{
Snapshot snapshot = new Snapshot();
snapshot.Type = type;
snapshot.Id = CreateKey();
snapshot.WhenCreated = DateTimeOffset.UtcNow;
//snapshot.FeedTitle = title;
snapshot.FeedSelfLink = selflink.ToString();
snapshot.Includes = (includes != null) ? includes.ToList() : null;
snapshot.Keys = keys;
snapshot.Count = keys.Count();
snapshot.SortBy = sortby;
return snapshot;
}
public async Task GivenAnEmptyBatchBundle_WhenProcessed_ReturnsABundleResponseWithNoEntries()
{
var bundle = new Hl7.Fhir.Model.Bundle
{
Type = BundleType.Batch,
};
var bundleRequest = new BundleRequest(bundle.ToResourceElement());
BundleResponse bundleResponse = await _bundleHandler.Handle(bundleRequest, CancellationToken.None);
var bundleResource = bundleResponse.Bundle.ToPoco <Hl7.Fhir.Model.Bundle>();
Assert.Equal(BundleType.BatchResponse, bundleResource.Type);
Assert.Empty(bundleResource.Entry);
}
private async Task ExecuteRequests(Hl7.Fhir.Model.Bundle responseBundle, Hl7.Fhir.Model.Bundle.HTTPVerb httpVerb)
{
foreach (RouteContext request in _requests[httpVerb])
{
var entryComponent = new Hl7.Fhir.Model.Bundle.EntryComponent();
if (request.Handler != null)
{
HttpContext httpContext = request.HttpContext;
await request.Handler.Invoke(httpContext);
httpContext.Response.Body.Seek(0, SeekOrigin.Begin);
string bodyContent = new StreamReader(httpContext.Response.Body).ReadToEnd();
ResponseHeaders responseHeaders = httpContext.Response.GetTypedHeaders();
entryComponent.Response = new Hl7.Fhir.Model.Bundle.ResponseComponent
{
Status = httpContext.Response.StatusCode.ToString(),
Location = responseHeaders.Location?.OriginalString,
Etag = responseHeaders.ETag?.ToString(),
LastModified = responseHeaders.LastModified,
};
if (!string.IsNullOrWhiteSpace(bodyContent))
{
var entryComponentResource = _fhirJsonParser.Parse <Resource>(bodyContent);
if (entryComponentResource.ResourceType == ResourceType.OperationOutcome)
{
entryComponent.Response.Outcome = entryComponentResource;
}
else
{
entryComponent.Resource = entryComponentResource;
}
}
}
else
{
entryComponent.Response = new Hl7.Fhir.Model.Bundle.ResponseComponent {
Status = ((int)HttpStatusCode.NotFound).ToString()
};
}
responseBundle.Entry.Add(entryComponent);
}
}
/// <summary>
/// Extra Fhir resource list from fhir bundle.entry.
/// </summary>
/// <param name="bundle"></param>
/// <param name="resourceName"></param>
/// <returns></returns>
private List <Resource> ExtraFhirResourceFromBundle(FhirModel.Bundle bundle, string resourceName)
{
List <Resource> fhirResourceList = new List <Resource>();
if (bundle.Entry != null && bundle.Entry.Count > 0)
{
bundle.Entry.ForEach(e =>
{
if (e.Resource.ResourceType.ToString() == resourceName)
{
fhirResourceList.Add(e.Resource);
}
});
}
return(fhirResourceList);
}
public void NextSceneOnClick(string input)
{
int Case = GameObject.FindGameObjectWithTag("Manager").GetComponent <Settings>().QuestionType;
if (Case != 1)
{
Debug.Log("Should be trying to load next scene");
SceneManager.LoadScene(TargetScene);
}
else
{
string FHIR_Information = input;
var Fhir_Client = new FhirClient("http://stu3.test.pyrohealth.net/fhir");
Fhir_Client.Timeout = (60 * 1000);
Hl7.Fhir.Model.Bundle ReturnedSearchBundle = Fhir_Client.Search <Hl7.Fhir.Model.Observation>(new string[] { "patient=Patient/" + FHIR_Information });
string id = "";
foreach (var Entry in ReturnedSearchBundle.Entry)
{
id = Entry.Resource.Id;
}
var obs = Fhir_Client.Read <Observation>("Observation/" + id);
if (obs.Code.Coding[0].Code == "23537-4")
{
if (obs.Interpretation.Coding[0].Code == "H")
{
SceneManager.LoadScene(13);
}
else
{
SceneManager.LoadScene(9);
}
}
else
{
SceneManager.LoadScene(1);
}
}
}
private async Task <BundleResponse> ExecuteTransactionForAllRequests(Hl7.Fhir.Model.Bundle responseBundle)
{
try
{
using (var transaction = _transactionHandler.BeginTransaction())
{
await ExecuteAllRequests(responseBundle);
transaction.Complete();
}
}
catch (TransactionAbortedException)
{
_logger.LogError("Failed to commit a transaction. Throwing BadRequest as a default exception.");
throw new TransactionFailedException(Api.Resources.GeneralTransactionFailedError, HttpStatusCode.BadRequest);
}
return(new BundleResponse(responseBundle.ToResourceElement()));
}
public async Task GivenABundle_WhenOneRequestProducesA429_SubsequentRequestAreSkipped()
{
var bundle = new Hl7.Fhir.Model.Bundle
{
Type = BundleType.Batch,
Entry = new List <EntryComponent>
{
new EntryComponent {
Request = new RequestComponent {
Method = HTTPVerb.GET, Url = "/Patient"
}
},
new EntryComponent {
Request = new RequestComponent {
Method = HTTPVerb.GET, Url = "/Patient"
}
},
},
};
int callCount = 0;
_router.When(r => r.RouteAsync(Arg.Any <RouteContext>()))
.Do(info =>
{
info.Arg <RouteContext>().Handler = context =>
{
callCount++;
context.Response.StatusCode = StatusCodes.Status429TooManyRequests;
return(Task.CompletedTask);
};
});
var bundleRequest = new BundleRequest(bundle.ToResourceElement());
BundleResponse bundleResponse = await _bundleHandler.Handle(bundleRequest, default);
Assert.Equal(1, callCount);
var bundleResource = bundleResponse.Bundle.ToPoco <Hl7.Fhir.Model.Bundle>();
Assert.Equal(2, bundleResource.Entry.Count);
Assert.All(bundleResource.Entry, e => Assert.Equal("429", e.Response.Status));
}
public async Task <BundleResponse> Handle(BundleRequest bundleRequest, CancellationToken cancellationToken)
{
var bundleResource = bundleRequest.Bundle.ToPoco <Hl7.Fhir.Model.Bundle>();
if (bundleResource.Type != Hl7.Fhir.Model.Bundle.BundleType.Batch)
{
throw new MethodNotAllowedException(Microsoft.Health.Fhir.Api.Resources.OnlyCertainBundleTypesSupported);
}
await FillRequestLists(bundleResource.Entry);
var responseBundle = new Hl7.Fhir.Model.Bundle
{
Type = Hl7.Fhir.Model.Bundle.BundleType.BatchResponse,
};
await ExecuteAllRequests(responseBundle);
return(new BundleResponse(responseBundle.ToResourceElement()));
}
public async Task GivenABundle_WhenProcessed_CertainResponseHeadersArePropagatedToOuterResponse()
{
var bundle = new Hl7.Fhir.Model.Bundle
{
Type = BundleType.Batch,
Entry = new List <EntryComponent>
{
new EntryComponent {
Request = new RequestComponent {
Method = HTTPVerb.GET, Url = "/Patient"
}
},
new EntryComponent {
Request = new RequestComponent {
Method = HTTPVerb.GET, Url = "/Patient"
}
},
},
};
string headerName = "x-ms-request-charge";
_router.When(r => r.RouteAsync(Arg.Any <RouteContext>()))
.Do(info =>
{
info.Arg <RouteContext>().Handler = context =>
{
IHeaderDictionary headers = context.Response.Headers;
headers.TryGetValue(headerName, out StringValues existing);
headers[headerName] = (existing == default(StringValues) ? 2.0 : double.Parse(existing.ToString()) + 2.0).ToString(CultureInfo.InvariantCulture);
return(Task.CompletedTask);
};
});
var bundleRequest = new BundleRequest(bundle.ToResourceElement());
await _bundleHandler.Handle(bundleRequest, default);
Assert.Equal("4", _fhirRequestContext.ResponseHeaders[headerName].ToString());
}
public List <Diagnosis> FindDiagnosis(string patientId)
{
var diagnosticResults = new List <Diagnosis>();
Hl7.Fhir.Rest.FhirClient fhirClient = FhirClientManager.CreateClientConnection(Configuration);
fhirClient = FhirClientManager.CreateClientConnection(Configuration);
Hl7.Fhir.Model.Bundle ReturnedSearchBundle =
fhirClient.Search <Hl7.Fhir.Model.DiagnosticReport>(new string[] { $"patient={patientId}" });
foreach (var resource in ReturnedSearchBundle.Entry)
{
var diagnosticReport = (DiagnosticReport)resource.Resource;
foreach (var item in diagnosticReport.Contained)
{
diagnosticResults.Add((Diagnosis)item);
}
}
return(diagnosticResults);
}
public async Task GivenABundleWithAnExportPost_WhenProcessed_ThenItIsProcessedCorrectly()
{
var bundle = new Hl7.Fhir.Model.Bundle
{
Type = BundleType.Batch,
Entry = new List <EntryComponent>
{
new EntryComponent {
Request = new RequestComponent {
Method = HTTPVerb.POST, Url = "/$export"
}
},
},
};
var bundleRequest = new BundleRequest(bundle.ToResourceElement());
BundleResponse bundleResponse = await _bundleHandler.Handle(bundleRequest, CancellationToken.None);
var bundleResource = bundleResponse.Bundle.ToPoco <Hl7.Fhir.Model.Bundle>();
Assert.Equal(BundleType.BatchResponse, bundleResource.Type);
Assert.Single(bundleResource.Entry);
}
public async Task GivenATransactionBundleWithIdentifierReferences_WhenResolved_ThenReferencesValuesAreNotUpdated()
{
var observation = new Observation
{
Subject = new ResourceReference
{
Identifier = new Identifier("https://example.com", "12345"),
},
};
var bundle = new Hl7.Fhir.Model.Bundle
{
Entry = new List <EntryComponent>
{
new EntryComponent
{
Resource = observation,
},
},
};
var referenceIdDictionary = new Dictionary <string, (string resourceId, string resourceType)>();
foreach (var entry in bundle.Entry)
{
var references = entry.Resource.GetAllChildren <ResourceReference>().ToList();
// Asserting the conditional reference value before resolution
Assert.Null(references.First().Reference);
var requestUrl = (entry.Request != null) ? entry.Request.Url : null;
await _testBaseConditionalHandler.ResolveReferencesAsync(entry.Resource, referenceIdDictionary, requestUrl, CancellationToken.None);
// Asserting the resolved reference value after resolution
Assert.Null(references.First().Reference);
}
}
public async Task GivenAFailedTransaction_WhenProcessed_ThenNoNotificationWillBeEmitted()
{
var bundle = new Hl7.Fhir.Model.Bundle
{
Type = BundleType.Transaction,
Entry = new List <EntryComponent>
{
new EntryComponent
{
Request = new RequestComponent
{
Method = HTTPVerb.PUT,
Url = "unused1",
},
Resource = new Patient(),
},
new EntryComponent
{
Request = new RequestComponent
{
// This will fail and cause an exception to be thrown
Method = HTTPVerb.GET,
Url = "unused2",
},
},
},
};
_router.When(r => r.RouteAsync(Arg.Any <RouteContext>()))
.Do(RouteAsyncFunction);
var bundleRequest = new BundleRequest(bundle.ToResourceElement());
await Assert.ThrowsAsync <FhirTransactionFailedException>(() => _bundleHandler.Handle(bundleRequest, default));
await _mediator.DidNotReceive().Publish(Arg.Any <BundleMetricsNotification>(), Arg.Any <CancellationToken>());
}
private async Task ExecuteRequests(Hl7.Fhir.Model.Bundle responseBundle, Hl7.Fhir.Model.Bundle.HTTPVerb httpVerb)
{
foreach (RouteContext request in _requests[httpVerb])
{
var entryComponent = new Hl7.Fhir.Model.Bundle.EntryComponent();
if (request.Handler != null)
{
HttpContext httpContext = request.HttpContext;
IFhirRequestContext originalFhirRequestContext = _fhirRequestContextAccessor.FhirRequestContext;
request.RouteData.Values.TryGetValue(KnownActionParameterNames.ResourceType, out object resourceType);
var newFhirRequestContext = new FhirRequestContext(
httpContext.Request.Method,
httpContext.Request.GetDisplayUrl(),
originalFhirRequestContext.BaseUri.OriginalString,
originalFhirRequestContext.CorrelationId,
httpContext.Request.Headers,
httpContext.Response.Headers,
resourceType?.ToString())
{
Principal = originalFhirRequestContext.Principal,
};
_fhirRequestContextAccessor.FhirRequestContext = newFhirRequestContext;
_bundleHttpContextAccessor.HttpContext = httpContext;
await request.Handler.Invoke(httpContext);
httpContext.Response.Body.Seek(0, SeekOrigin.Begin);
string bodyContent = new StreamReader(httpContext.Response.Body).ReadToEnd();
ResponseHeaders responseHeaders = httpContext.Response.GetTypedHeaders();
entryComponent.Response = new Hl7.Fhir.Model.Bundle.ResponseComponent
{
Status = httpContext.Response.StatusCode.ToString(),
Location = responseHeaders.Location?.OriginalString,
Etag = responseHeaders.ETag?.ToString(),
LastModified = responseHeaders.LastModified,
};
if (!string.IsNullOrWhiteSpace(bodyContent))
{
var entryComponentResource = _fhirJsonParser.Parse <Resource>(bodyContent);
if (entryComponentResource.ResourceType == ResourceType.OperationOutcome)
{
entryComponent.Response.Outcome = entryComponentResource;
if (responseBundle.Type == Hl7.Fhir.Model.Bundle.BundleType.TransactionResponse)
{
ThrowTransactionException(httpContext, (OperationOutcome)entryComponentResource);
}
}
else
{
entryComponent.Resource = entryComponentResource;
}
}
else
{
if (httpContext.Response.StatusCode == (int)HttpStatusCode.Forbidden)
{
entryComponent.Response.Outcome = CreateOperationOutcome(
OperationOutcome.IssueSeverity.Error,
OperationOutcome.IssueType.Forbidden,
Api.Resources.Forbidden);
}
}
}
else
{
entryComponent.Response = new Hl7.Fhir.Model.Bundle.ResponseComponent
{
Status = ((int)HttpStatusCode.NotFound).ToString(),
Outcome = CreateOperationOutcome(
OperationOutcome.IssueSeverity.Error,
OperationOutcome.IssueType.NotFound,
string.Format(Api.Resources.BundleNotFound, $"{request.HttpContext.Request.Path}{request.HttpContext.Request.QueryString}")),
};
}
responseBundle.Entry.Add(entryComponent);
}
}